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Phenotype Ontology
Like Gene Ontology (GO), phenotypy ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Phenotype ontologies we have incorporated are as follows:

• Disease Ontology (DO) Ontology (DO)
  DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI thesaurus, SNOMED and OMIM.
  
• Human Phenotype (HP) Ontology (HP)
  HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
  
• Mouse Phenotype (MP) Ontology (MP)
  MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
  
• Worm Phenotype (WP) Ontology (WP)
  WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
  
• Yeast Phenotype (YP) Ontology (YP)
  Based on YP which is the major contributor to the Ascomycete phenotype ontology, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
  
• Fly Phenotype (FP) Ontology (FP)
  FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
  
• Fly Anatomy (FA) Ontology (FA)
  FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
  
• Zebrafish Anatomy (ZA) Ontology (ZA)
  ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
  
• Xenopus Anatomy (XA) Ontology (XA)
  XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
  
• Arabidopsis Plant Ontology (AP) Ontology (AP)
  As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
  
• Enzyme Commission (EC) Ontology (EC)
  Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
  
• DrugBank ATC (DB) Ontology (DB)
  In the Anatomical Therapeutic Chemical (ATC) classification system, drugs are classified in groups at five different levels according to the organ or system (1st level, anatomical main group) on which they act and their therapeutic (2nd level, therapeutic subgroup), pharmacological (3rd level, pharmacological subgroup) and chemical properties (4th level, chemical subgroup; 5th level, chemical substance). Only drugs in DrugBank are considered.
  
• UniProtKB KeyWords (KW) Ontology (KW)
  Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
  
• UniProtKB UniPathway (UP) Ontology (UP)
  UP is a fully manually curated resource for the representation and annotation of metabolic pathways, being used as controlled vocabulary for pathway annotation in UniProtKB.
  

Structural Domain Phenotype Ontology and its Annotations
Structural Classification of Proteins (SCOP) classifies evolutionary-related domains into Superfamily level and Family level. Using the phenotype ontologies above, we have generated the domain-centric phenotype annotations, and further identified those phenotype terms which are the most informative to annotate SCOP domains. Promisingly, domain-centric phenotypic annotations can serve as an alternative starting point to explore genotype-phenotype relationships. We provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.

• Structural Domain Disease Ontology (DO) Ontology (SDDO) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DO.txt, and the corresponding ontology:SDDO.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Human Phenotype (HP) Ontology (SDHP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2HP.txt, and the corresponding ontology:SDHP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Mouse Phenotype (MP) Ontology (SDMP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2MP.txt, and the corresponding ontology:SDMP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Worm Phenotype (WP) Ontology (SDWP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2WP.txt, and the corresponding ontology:SDWP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Yeast Phenotype (YP) Ontology (SDYP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2YP.txt, and the corresponding ontology:SDYP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Fly Phenotype (FP) Ontology (SDFP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FP.txt, and the corresponding ontology:SDFP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Fly Anatomy (FA) Ontology (SDFA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FA.txt, and the corresponding ontology:SDFA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Zebrafish Anatomy (ZA) Ontology (SDZA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2ZA.txt, and the corresponding ontology:SDZA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Xenopus Anatomy (XA) Ontology (SDXA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2XA.txt, and the corresponding ontology:SDXA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Arabidopsis Plant Ontology (AP) Ontology (SDAP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2AP.txt, and the corresponding ontology:SDAP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Enzyme Commission (EC) Ontology (SDEC) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2EC.txt, and the corresponding ontology:SDEC.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain DrugBank ATC (DB) Ontology (SDDB) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DB.txt, and the corresponding ontology:SDDB.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain UniProtKB KeyWords (KW) Ontology (SDKW) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2KW.txt, and the corresponding ontology:SDKW.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain UniProtKB UniPathway (UP) Ontology (SDUP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2UP.txt, and the corresponding ontology:SDUP.txt) and mysql tables (Domain2PO.sql.gz).
  

Supra-domain Phenotype Ontology and its Annotations
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are interested in domain combinations. Also, we provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.

• Supra-domain Domain Disease Ontology (DO) Ontology (SPDO) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DO.txt, and the corresponding ontology:SPDO.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Human Phenotype (HP) Ontology (SPHO) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2HP.txt, and the corresponding ontology:SPHO.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Mouse Phenotype (MP) Ontology (SPMP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2MP.txt, and the corresponding ontology:SPMP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Worm Phenotype (WP) Ontology (SPWP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2WP.txt, and the corresponding ontology:SPWP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Yeast Phenotype (YP) Ontology (SPYP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2YP.txt, and the corresponding ontology:SPYP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Fly Phenotype (FP) Ontology (SPFP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FP.txt, and the corresponding ontology:SPFP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Fly Anatomy (FA) Ontology (SPFA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FA.txt, and the corresponding ontology:SPFA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Zebrafish Anatomy (ZA) Ontology (SPZA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2ZA.txt, and the corresponding ontology:SPZA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Xenopus Anatomy (XA) Ontology (SPXA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2XA.txt, and the corresponding ontology:SPXA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Arabidopsis Plant Ontology (AP) Ontology (SPAP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2AP.txt, and the corresponding ontology:SPAP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Enzyme Commission (EC) Ontology (SPEC) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2EC.txt, and the corresponding ontology:SPEC.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain DrugBank ATC (DB) Ontology (SPDB) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DB.txt, and the corresponding ontology:SPDB.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain UniProtKB KeyWords (KW) Ontology (SPKW) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2KW.txt, and the corresponding ontology:SPKW.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain UniProtKB UniPathway (UP) Ontology (SPUP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2UP.txt, and the corresponding ontology:SPUP.txt) and mysql tables (SP2PO.sql.gz).
  

Superfamily domains annotated to this XA term (SDXA level: Least Informative)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
eIF4e-like	0	DIRECT
Synuclein	0	DIRECT
Cap-Gly domain	0	DIRECT
Acyl-CoA dehydrogenase NM domain-like	0	DIRECT
Aconitase iron-sulfur domain	0	DIRECT
Translation proteins SH3-like domain	0	DIRECT
FF domain	0	DIRECT
SPOC domain-like	0	DIRECT
SAP domain	0	DIRECT
Vasodilator-stimulated phosphoprotein, VASP, tetramerisation domain	0	DIRECT
Proteasome activator	0	DIRECT
DNA ligase/mRNA capping enzyme, catalytic domain	0	DIRECT
DnaJ/Hsp40 cysteine-rich domain	0	DIRECT
Hedgehog/DD-peptidase	0	DIRECT
Tim10-like	0	DIRECT
Class I glutamine amidotransferase-like	0	DIRECT
N-acetylmuramoyl-L-alanine amidase-like	0	DIRECT
BRK domain-like	0	DIRECT
post-AAA+ oligomerization domain-like	0	DIRECT
Bromodomain	0	DIRECT
MIR domain	0	DIRECT
FAS1 domain	0	DIRECT
14-3-3 protein	0	DIRECT
Zn-finger domain of Sec23/24	0	DIRECT
PLP-binding barrel	0	DIRECT
Ribosomal proteins L15p and L18e	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
Orange domain-like	0	DIRECT
Subdomain of clathrin and coatomer appendage domain	0	DIRECT
Uracil-DNA glycosylase-like	0	DIRECT
Myosin phosphatase inhibitor 17kDa protein, CPI-17	0	DIRECT
Delta-sleep-inducing peptide immunoreactive peptide	0	DIRECT
Zn-binding ribosomal proteins	0	DIRECT
ADP-ribosylglycohydrolase	0	DIRECT
Cysteine-rich DNA binding domain, (DM domain)	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
PAP/OAS1 substrate-binding domain	0	DIRECT
Surp module (SWAP domain)	0	DIRECT
RBP11-like subunits of RNA polymerase	0	DIRECT
GYF domain	0	DIRECT
WGR domain-like	0	DIRECT
Troponin coil-coiled subunits	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
TK C-terminal domain-like	0	DIRECT
E2F-DP heterodimerization region	0	DIRECT
Ribulose-phoshate binding barrel	0	DIRECT
Nucleoplasmin-like core domain	0	DIRECT
Endosomal sorting complex assembly domain	0	DIRECT
Cryptochrome/photolyase, N-terminal domain	0	DIRECT
Ferritin-like	0	DIRECT
G protein-binding domain	0	DIRECT
Ribosomal protein L10-like	0	DIRECT
HSP90 C-terminal domain	0	DIRECT
Guanido kinase N-terminal domain	0	DIRECT
Sec63 N-terminal domain-like	0	DIRECT
Mitochondrial cytochrome c oxidase subunit VIIa	0	DIRECT
Phosphoglucomutase, C-terminal domain	0	DIRECT
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
DLC	0	DIRECT
Mib/herc2 domain-like	0	DIRECT
Soluble quinoprotein glucose dehydrogenase	0	DIRECT
Alanine racemase C-terminal domain-like	0	DIRECT
beta and beta-prime subunits of DNA dependent RNA-polymerase	0	DIRECT
TAFH domain-like	0	DIRECT
PEBP-like	0	DIRECT
Phosphoglucomutase, first 3 domains	0	DIRECT
alpha-catenin/vinculin-like	0	DIRECT
FMT C-terminal domain-like	0	DIRECT
BAG domain	0	DIRECT
PAH2 domain	0	DIRECT
LeuD/IlvD-like	0	DIRECT
Subunits of heterodimeric actin filament capping protein Capz	0	DIRECT
Connexin43	0	DIRECT
Nop domain	0	DIRECT
Trefoil	0	DIRECT
4Fe-4S ferredoxins	0	DIRECT
Notch domain	0	DIRECT
Acyl-CoA binding protein	0	DIRECT
Nucleoporin domain	0	DIRECT
beta-sandwich domain of Sec23/24	0	DIRECT
HRDC-like	0	DIRECT
Acyl-CoA dehydrogenase C-terminal domain-like	0	DIRECT
NAP-like	0	DIRECT
Clathrin adaptor appendage domain	0	DIRECT
HSP40/DnaJ peptide-binding domain	0	DIRECT
GFP-like	0	DIRECT
Ribosomal proteins S24e, L23 and L15e	0	DIRECT
Ribonuclease PH domain 2-like	0	DIRECT
SRF-like	0	DIRECT
Cation efflux protein cytoplasmic domain-like	0	DIRECT
L-aspartase-like	0	DIRECT
Cytokine	0	DIRECT
Cryptochrome/photolyase FAD-binding domain	0	DIRECT
C-terminal domain of adenylylcyclase associated protein	0	DIRECT
SMAD MH1 domain	0	DIRECT
Aminoacid dehydrogenase-like, N-terminal domain	0	DIRECT
Moesin tail domain	0	DIRECT
Alpha-macroglobulin receptor domain	0	DIRECT
Aromatic aminoacid monoxygenases, catalytic and oligomerization domains	0	DIRECT
alpha-ketoacid dehydrogenase kinase, N-terminal domain	0	DIRECT
CoA-dependent acyltransferases	0	DIRECT
PriA/YqbF domain	0	DIRECT
NTF2-like	0	DIRECT
Mediator hinge subcomplex-like	0	DIRECT
TSP type-3 repeat	0	DIRECT
Domain of poly(ADP-ribose) polymerase	0	DIRECT
KA1-like	0	DIRECT
SIS domain	0	DIRECT
LuxS/MPP-like metallohydrolase	0	DIRECT
Helical domain of Sec23/24	0	DIRECT
Di-copper centre-containing domain	0	DIRECT
Apolipoprotein A-I	0	DIRECT
Fibrinogen coiled-coil and central regions	0	DIRECT
GINS helical bundle-like	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
F1F0 ATP synthase subunit C	0	DIRECT
IP3 receptor type 1 binding core, domain 2	0	DIRECT
Ribosomal L27 protein-like	0	DIRECT
BSD domain-like	0	DIRECT
Arginase/deacetylase	0	DIRECT
Homeodomain-like	0.0000113	DIRECT
RNA-binding domain, RBD	0.00001501	DIRECT
"Winged helix" DNA-binding domain	0.0001222	DIRECT
Nucleic acid-binding proteins	0.0003405	DIRECT
HLH, helix-loop-helix DNA-binding domain	0.0003969	DIRECT
Thioredoxin-like	0.01149	INHERITED FROM: bone tissue || skeletal tissue || early proximal tubule || connective tissue
Cyclin-like	0.02552	INHERITED FROM: postmigratory neural crest cell
SET domain	0.03893	INHERITED FROM: primary germ layer
Actin depolymerizing proteins	0.05437	INHERITED FROM: bone tissue || skeletal tissue || connective tissue
HSP20-like chaperones	0.05907	INHERITED FROM: skeletal muscle
HMG-box	0.06142	INHERITED FROM: pre-chordal neural plate || retinal layer || endoderm || endocardium || neural plate border || midbrain-hindbrain boundary || anterior neural fold || otic vesicle || anterior branchial crest || cranial neural crest || blastocoel floor || neuroectoderm || neural plate || hyoid crest || chordal neural plate || posterior branchial crest || optic field || mandibular crest || neural crest || neural fold || neurogenic placode || neuroectoderm outer layer
Tubulin C-terminal domain-like	0.09077	INHERITED FROM: epithelial cell || gastrocoel roof plate || vagus nerve || glossopharyngeal nerve || trigeminal nerve || epidermal cell || epidermis || epithelium || non-neural ectoderm || facial nerve
ARID-like	0.1023	INHERITED FROM: pronephric tubule
Heat shock protein 70kD (HSP70), peptide-binding domain	0.1023	INHERITED FROM: skeletal muscle
GroEL equatorial domain-like	0.1228	INHERITED FROM: skeletal muscle || muscle || endomesoderm || anterior dorsal lateral plate region
Actin-like ATPase domain	0.127	INHERITED FROM: skeletal muscle || jaw muscle || head somite || myocyte || cranial muscle
p53-like transcription factors	0.1342	INHERITED FROM: mesenchyme || blastema || cartilage tissue || mesoderm || cranial placode || involuted ventral mesoderm || notochord || primary heart field || myocardium || regenerating tissue || facial nerve || neuroectoderm || neural plate || neurogenic placode
Glucocorticoid receptor-like (DNA-binding domain)	0.1635	INHERITED FROM: post-anal gut || cranial placode || zona limitans intrathalamica || proximal tubule branch || archenteron floor || preplacodal ectoderm || anterior placodal area || neuroectoderm || sensorial layer of neurectoderm
GroEL-intermediate domain like	0.1649	INHERITED FROM: skeletal muscle || muscle || endomesoderm || anterior dorsal lateral plate region
Thiolase-like	0.1649	INHERITED FROM: skeletal muscle
Second domain of FERM	0.1953	INHERITED FROM: nerve
Tubulin nucleotide-binding domain-like	0.2077	INHERITED FROM: epithelial cell || gastrocoel roof plate || vagus nerve || glossopharyngeal nerve || trigeminal nerve || epidermal cell || epidermis || epithelium || non-neural ectoderm || facial nerve
Transducin (alpha subunit), insertion domain	0.2397	INHERITED FROM: olfactory sensory neuron || olfactory epithelium
Translation proteins	0.24	INHERITED FROM: ventral blood island
Spectrin repeat	0.24	INHERITED FROM: auditory hair cell || epithelial cell || sensory epithelial cell
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	0.2639	INHERITED FROM: skeletal muscle
Hemopexin-like domain	0.3001	INHERITED FROM: mesodermal cell || notochord || fibroblast
GroEL apical domain-like	0.3234	INHERITED FROM: skeletal muscle || muscle || anterior dorsal lateral plate region
Myosin rod fragments	0.3478	INHERITED FROM: musculature of face
SMAD/FHA domain	0.3529	INHERITED FROM: endocardium
Frizzled cysteine-rich domain	0.358	INHERITED FROM: pre-chordal neural plate || mesenchyme || endoderm || lateral plate mesoderm || mesoderm || involuted dorsal mesoderm || midbrain-hindbrain boundary || anterior neural fold || otic vesicle || presomitic mesoderm || somite || presumptive paraxial mesoderm || tail tip || tail fin || neuroectoderm || mouth primordium || neural plate || optic field || neural fold || neurogenic placode || stomodeal-hypophyseal primordium
Clavaminate synthase-like	0.3752	INHERITED FROM: late proximal tubule || late distal tubule
Phosphoglycerate mutase-like	0.3806	INHERITED FROM: mesenchyme || notochord || head mesenchyme
Annexin	0.4001	INHERITED FROM: bone tissue
LDH C-terminal domain-like	0.4053	INHERITED FROM: bone tissue || skeletal tissue || connective tissue
Cystine-knot cytokines	0.4729	INHERITED FROM: mesenchyme || endoderm || blastema || secondary heart field || mesoderm || involuted dorsal mesoderm || neural groove || notochord || primary heart field || ventral mesoderm || head mesoderm || regenerating tissue || head mesenchyme || vegetal endoderm || neuroectoderm || mouth primordium || involuting marginal zone mesenchymal layer || neurogenic placode
lambda repressor-like DNA-binding domains	0.5081	INHERITED FROM: pronephric tubule || cranial placode || late distal tubule || early distal tubule || proximal tubule || pronephric mesenchyme || neuroectoderm || neural plate || chordal neural plate || distal tubule || neural fold || neurogenic placode
Kringle-like	0.5683	INHERITED FROM: neural groove || epithelium
Intermediate filament protein, coiled coil region	0.5739	INHERITED FROM: spinal ganglion || nerve || retinal ganglion cell || retinal inner plexiform layer || vestibulocochlear nerve || cranial nerve || epidermis || epithelium || ganglion || optic nerve || retinal ganglion cell layer || retinal inner nuclear layer
FnI-like domain	0.5767	INHERITED FROM: endoderm || epithelial cell || hypochord || somite || notochord
Globin-like	0.6373	INHERITED FROM: ventral blood island || anterior ventral blood island || hematopoietic stem cell || anterior dorsal lateral plate region
Growth factor receptor domain	0.6544	INHERITED FROM: mesenchyme || hypochord || fin || pre-chordal neural plate border || otic vesicle || anterior neural ridge || notochord || tail tip
TIMP-like	0.6946	INHERITED FROM: pre-chordal neural plate || endoderm || optic field || stomodeal-hypophyseal primordium
Snake toxin-like	0.6981	INHERITED FROM: pre-chordal neural plate || dorsal lateral plate mesoderm || mesenchyme || lateral plate mesoderm || mesoderm || involuted dorsal mesoderm || ventral mesoderm || head mesoderm || head mesenchyme || neuroectoderm || neural plate || chordal neural plate
Kazal-type serine protease inhibitors	0.7203	INHERITED FROM: hypochord || neural groove || notochord || neural plate
Tropomyosin	0.7559	INHERITED FROM: dermomyotome || myotome || myocyte || myocardium
Sema domain	0.7636	INHERITED FROM: involuted dorsal mesoderm || cranial placode || otic placode || cranial neural crest || neuroectoderm || neural crest
Protein kinase-like (PK-like)	0.7728	INHERITED FROM: regenerating hindlimb || head mesoderm
Integrin domains	0.8296	INHERITED FROM: mesodermal cell || fibroblast
EGF/Laminin	0.8302	INHERITED FROM: hypochord || neural groove || notochord
PYP-like sensor domain (PAS domain)	0.9753	INHERITED FROM: somite || epaxial muscle
beta-beta-alpha zinc fingers	1	INHERITED FROM: pre-chordal neural plate || pre-chordal neural plate border || anterior neural ridge || chordal neural plate || splanchnic layer of lateral plate mesoderm || chordal neural plate border || neural fold
Fibronectin type III	1	INHERITED FROM: retinal ganglion cell layer || retinal inner nuclear layer
Family A G protein-coupled receptor-like	1	INHERITED FROM: granule cell layer of the olfactory bulb
TSP-1 type 1 repeat	1	INHERITED FROM: hypochord
Galactose-binding domain-like	1	INHERITED FROM: optic nerve
Voltage-gated potassium channels	1	INHERITED FROM: nerve || retinal inner plexiform layer || cranial nerve || optic nerve || retinal ganglion cell layer
Metalloproteases ("zincins"), catalytic domain	1	INHERITED FROM: mesodermal cell || fibroblast
EF-hand	1	INHERITED FROM: myocyte
Plexin repeat	1	INHERITED FROM: involuted dorsal mesoderm || cranial placode || otic placode || cranial neural crest || neuroectoderm || neural crest

Family domains annotated to this XA term (SDXA level: Least Informative)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Arginase-like amidino hydrolases	0	DIRECT
Polo-box duplicated region	0	DIRECT
Ribosomal proteins L15p and L18e	0	DIRECT
MHCK/EF2 kinase	0	DIRECT
ATP-dependent DNA ligase catalytic domain	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
Guanido kinase N-terminal domain	0	DIRECT
DNA ligase/mRNA capping enzyme postcatalytic domain	0	DIRECT
Zn-finger domain of Sec23/24	0	DIRECT
Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain	0	DIRECT
Cytidylyltransferase	0	DIRECT
14-3-3 protein	0	DIRECT
DJ-1/PfpI	0	DIRECT
MIR domain	0	DIRECT
Troponin T	0	DIRECT
Noggin	0	DIRECT
GDI-like N domain	0	DIRECT
ADP-ribosylglycohydrolase	0	DIRECT
Helical domain of Sec23/24	0	DIRECT
Alanine racemase-like, N-terminal domain	0	DIRECT
Mib/herc2 domain	0	DIRECT
C-terminal domain of adenylylcyclase associated protein	0	DIRECT
Cap-Gly domain	0	DIRECT
TAFH domain-like	0	DIRECT
Complement components	0	DIRECT
Phosphoglucomutase, first 3 domains	0	DIRECT
Ubiquitin carboxyl-terminal hydrolase UCH-L	0	DIRECT
Cryptochrome/photolyase FAD-binding domain	0	DIRECT
Prokaryotic proteases	0	DIRECT
Phenylalanine metabolism regulatory domain	0	DIRECT
HSP90 C-terminal domain	0	DIRECT
B56-like	0	DIRECT
HD domain	0	DIRECT
Delta-sleep-inducing peptide immunoreactive peptide	0	DIRECT
BAG domain	0	DIRECT
GABARAP-like	0	DIRECT
Nucleoplasmin-like core domain	0	DIRECT
IF2B-like	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
Ribosomal protein L3	0	DIRECT
Translation initiation factor eIF4e	0	DIRECT
Sedlin (SEDL)	0	DIRECT
NIPSNAP	0	DIRECT
RUNT domain	0	DIRECT
PDI-like	0	DIRECT
RNA-polymerase beta-prime	0	DIRECT
Ran-binding domain	0	DIRECT
NTF2-like	0	DIRECT
Branched-chain alpha-keto acid dehydrogenase Pyr module	0	DIRECT
Sm motif of small nuclear ribonucleoproteins, SNRNP	0	DIRECT
TSP type-3 repeat	0	DIRECT
FAS1 domain	0	DIRECT
UBX domain	0	DIRECT
BSD domain	0	DIRECT
Noncollagenous (NC1) domain of collagen IV	0	DIRECT
WGR domain	0	DIRECT
Dimeric isocitrate & isopropylmalate dehydrogenases	0	DIRECT
DNA polymerase III clamp loader subunits, C-terminal domain	0	DIRECT
MIF4G domain-like	0	DIRECT
TRAPP components	0	DIRECT
RNA-polymerase beta	0	DIRECT
Apolipoprotein A-I	0	DIRECT
Kinase associated domain 1, KA1	0	DIRECT
Connexin43	0	DIRECT
acyl-CoA oxidase C-terminal domains	0	DIRECT
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
Trefoil	0	DIRECT
ZZ domain	0	DIRECT
Hairy Orange domain	0	DIRECT
ECR1 N-terminal domain-like	0	DIRECT
Heat shock protein 90, HSP90, N-terminal domain	0	DIRECT
Aminoacid dehydrogenase-like, C-terminal domain	0	DIRECT
HSP40/DnaJ peptide-binding domain	0	DIRECT
BRK domain-like	0	DIRECT
Troponin I	0	DIRECT
NLI interacting factor-like phosphatase	0	DIRECT
Tim10/DDP	0	DIRECT
HAT/Suf repeat	0	DIRECT
Class II glutamine amidotransferases	0	DIRECT
Ferritin	0	DIRECT
ets domain	0	DIRECT
CAT-like	0	DIRECT
SIAH, seven in absentia homolog	0	DIRECT
Pseudouridine synthase I TruA	0	DIRECT
E2F dimerization segment	0	DIRECT
Extracellular domain of cell surface receptors	0	DIRECT
Cystathionine synthase-like	0	DIRECT
Medium chain acyl-CoA dehydrogenase-like, C-terminal domain	0	DIRECT
LeuD-like	0	DIRECT
NagB-like	0	DIRECT
Autophagin-like	0	DIRECT
Hsp90 middle domain	0	DIRECT
Cryptochrome/photolyase, N-terminal domain	0	DIRECT
FF domain	0	DIRECT
Synuclein	0	DIRECT
Fibroblast growth factors (FGF)	0	DIRECT
N-acetylmuramoyl-L-alanine amidase-like	0	DIRECT
Retinol binding protein-like	0	DIRECT
Aromatic aminoacid monoxygenases, catalytic and oligomerization domains	0	DIRECT
Medium chain acyl-CoA dehydrogenase, NM (N-terminal and middle) domains	0	DIRECT
gamma-adaptin C-terminal appendage domain-like	0	DIRECT
L domain	0	DIRECT
Surp module (SWAP domain)	0	DIRECT
PAH2 domain	0	DIRECT
Cell cycle transcription factor e2f-dp	0	DIRECT
SH3BGR (SH3-binding, glutamic acid-rich protein-like)	0	DIRECT
HIT (HINT, histidine triad) family of protein kinase-interacting proteins	0	DIRECT
Adenain-like	0	DIRECT
MPP-like	0	DIRECT
Thrombospondin C-terminal domain	0	DIRECT
Bromodomain	0	DIRECT
alpha-catenin/vinculin	0	DIRECT
acyl-CoA oxidase N-terminal domains	0	DIRECT
MSP-like	0	DIRECT
TRASH domain	0	DIRECT
LON domain-like	0	DIRECT
Carboxylesterase	0	DIRECT
DnaJ/Hsp40 cysteine-rich domain	0	DIRECT
Trunk domain of Sec23/24	0	DIRECT
N-type ATP pyrophosphatases	0	DIRECT
Phosphatidylethanolamine binding protein	0	DIRECT
NAP-like	0	DIRECT
IP3 receptor type 1 binding core, domain 2	0	DIRECT
Guanido kinase catalytic domain	0	DIRECT
Notch domain	0	DIRECT
Vasodilator-stimulated phosphoprotein, VASP, tetramerisation domain	0	DIRECT
Cofilin-like	0	DIRECT
Prefoldin	0	DIRECT
S-adenosylhomocystein hydrolase	0	DIRECT
Pumilio repeat	0	DIRECT
alpha-ketoacid dehydrogenase kinase, C-terminal domain	0	DIRECT
Pointed domain	0	DIRECT
Myosin phosphatase inhibitor 17kDa protein, CPI-17	0	DIRECT
Phosphoribosylpyrophosphate synthetase-like	0	DIRECT
Eukaryotic ODC-like	0	DIRECT
Cysteine-rich DNA binding domain, (DM domain)	0	DIRECT
Heat-shock transcription factor	0	DIRECT
Ribonuclease PH domain 2-like	0	DIRECT
Serine carboxypeptidase-like	0	DIRECT
Proteasome activator	0	DIRECT
C-terminal, gelsolin-like domain of Sec23/24	0	DIRECT
6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, phosphatase domain	0	DIRECT
F1F0 ATP synthase subunit C	0	DIRECT
Moesin tail domain	0	DIRECT
beta-sandwich domain of Sec23/24	0	DIRECT
Group II chaperonin (CCT, TRIC), intermediate domain	0	DIRECT
Ribonuclease PH domain 1-like	0	DIRECT
Histone deacetylase, HDAC	0	DIRECT
DNA ligase	0	DIRECT
Alpha-adaptin ear subdomain-like	0	DIRECT
Choline/Carnitine O-acyltransferase	0	DIRECT
Clathrin adaptor appendage, alpha and beta chain-specific domain	0	DIRECT
HCDH C-domain-like	0	DIRECT
SMAD MH1 domain	0	DIRECT
Acyl-CoA binding protein	0	DIRECT
Mitochondrial cytochrome c oxidase subunit VIIa	0	DIRECT
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	0	DIRECT
Nop domain	0	DIRECT
SMAD domain	0	DIRECT
SRF-like	0	DIRECT
SAP domain	0	DIRECT
P4 origin-binding domain-like	0	DIRECT
Class I aldolase	0	DIRECT
Malic enzyme N-domain	0	DIRECT
Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A	0	DIRECT
Fibrinogen coiled-coil and central regions	0	DIRECT
6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain	0	DIRECT
Domain G2 of nidogen-1	0	DIRECT
Phosphoglucomutase, C-terminal domain	0	DIRECT
alpha-ketoacid dehydrogenase kinase, N-terminal domain	0	DIRECT
Aconitase iron-sulfur domain	0	DIRECT
Paired domain	0	DIRECT
Class I glutamine amidotransferases (GAT)	0	DIRECT
Hedgehog (development protein), N-terminal signaling domain	0	DIRECT
Branched-chain alpha-keto acid dehydrogenase PP module	0	DIRECT
DLC	0	DIRECT
Alpha-macroglobulin receptor domain	0	DIRECT
Cytochrome b5	0	DIRECT
Arrestin/Vps26-like	0	DIRECT
Domain of poly(ADP-ribose) polymerase	0	DIRECT
Canonical RBD	0.000001444	DIRECT
Homeodomain	0.0002707	DIRECT
UBC-related	0.0004634	DIRECT
HLH, helix-loop-helix DNA-binding domain	0.0007064	DIRECT
Cyclin	0.009965	INHERITED FROM: migratory neural crest cell || postmigratory neural crest cell
Actin/HSP70	0.01598	INHERITED FROM: skeletal muscle || trunk somite || muscle || jaw muscle || head mesoderm || head somite || myocyte || cranial muscle
Forkhead DNA-binding domain	0.0163	INHERITED FROM: pre-chordal neural plate || mesenchyme || epithelial cell || mesoderm || involuted dorsal mesoderm || ciliated epidermal cell || pronephric nephrostome || anterior neural fold || pre-chordal neural plate border || involuted ventral mesoderm || presomitic mesoderm || anterior neural ridge || preplacodal ectoderm || head mesoderm || vagal neural crest || myocardium || tail tip || tail fin || anterior placodal area || neuroectoderm || neural plate || optic field || neural crest || chordoneural hinge || sensorial layer of neurectoderm || neural fold
Histone lysine methyltransferases	0.02857	INHERITED FROM: primary germ layer
Proteasome subunits	0.02857	INHERITED FROM: skeletal muscle || muscle
Tandem AAA-ATPase domain	0.03864	INHERITED FROM: ventral blood island || otic vesicle
LIM domain	0.0432	INHERITED FROM: cranial placode
T-box	0.04797	INHERITED FROM: mesenchyme || blastema || mesoderm || involuted dorsal mesoderm || involuted ventral mesoderm || notochord || primary heart field || myocardium || regenerating tissue || neurogenic placode
Glutathione peroxidase-like	0.05223	INHERITED FROM: pronephric tubule || bone tissue || skeletal tissue || paraxial mesoderm || presomitic mesoderm || presumptive paraxial mesoderm || early proximal tubule || early distal tubule || proximal tubule || pronephric mesenchyme || cranial neural crest || distal tubule
PHD domain	0.06325	INHERITED FROM: primary germ layer
HMG-box	0.07097	INHERITED FROM: pre-chordal neural plate || retinal layer || endoderm || endocardium || neural plate border || midbrain-hindbrain boundary || anterior neural fold || otic vesicle || anterior branchial crest || cranial neural crest || blastocoel floor || neuroectoderm || epibranchial placode || neural plate || hyoid crest || posterior branchial crest || optic field || mandibular crest || neural fold || neuroectoderm outer layer
Transforming growth factor (TGF)-beta	0.08636	INHERITED FROM: mesenchyme || endoderm || blastema || secondary heart field || mesoderm || involuted dorsal mesoderm || gastrocoel roof plate || neural groove || notochord || primary heart field || ventral mesoderm || head mesoderm || early distal tubule || regenerating tissue || head mesenchyme || vegetal endoderm || mouth primordium || involuting marginal zone mesenchymal layer || foregut endoderm || neurogenic placode
Tubulin, GTPase domain	0.09322	INHERITED FROM: epithelial cell || gastrocoel roof plate || vagus nerve || glossopharyngeal nerve || trigeminal nerve || epidermal cell || epidermis || epithelium || non-neural ectoderm || facial nerve
Tubulin, C-terminal domain	0.09322	INHERITED FROM: epithelial cell || gastrocoel roof plate || vagus nerve || glossopharyngeal nerve || trigeminal nerve || epidermal cell || epidermis || epithelium || non-neural ectoderm || facial nerve
ARID domain	0.1005	INHERITED FROM: pronephric tubule
Heat shock protein 70kD (HSP70), peptide-binding domain	0.1005	INHERITED FROM: skeletal muscle
Growth factor receptor domain	0.1258	INHERITED FROM: mesenchyme || mesoderm || hypochord || fin || notochord
Small Kunitz-type inhibitors & BPTI-like toxins	0.1571	INHERITED FROM: adipose tissue
Translational machinery components	0.2042	INHERITED FROM: skeletal muscle || muscle
Group II chaperonin (CCT, TRIC), apical domain	0.2042	INHERITED FROM: skeletal muscle || muscle || anterior dorsal lateral plate region
Thiolase-related	0.2042	INHERITED FROM: skeletal muscle || muscle
Group II chaperonin (CCT, TRIC), ATPase domain	0.2056	INHERITED FROM: skeletal muscle || muscle || anterior dorsal lateral plate region
Myosin rod fragments	0.2096	INHERITED FROM: musculature of face
Transducin (alpha subunit), insertion domain	0.241	INHERITED FROM: olfactory sensory neuron || olfactory epithelium
POU-specific domain	0.241	INHERITED FROM: pre-chordal neural plate || pronephric tubule || late distal tubule || early distal tubule || proximal tubule || pronephric mesenchyme || retinal ganglion cell layer || neuroectoderm || neural plate || chordal neural plate || distal tubule || neural fold || neurogenic placode
Erythroid transcription factor GATA-1	0.2555	INHERITED FROM: endoderm || lateral plate mesoderm || mesoderm || ventral blood island || archenteron || archenteron floor || myocardium || hematopoietic stem cell || anterior dorsal lateral plate region
Ovomucoid domain III-like	0.2655	INHERITED FROM: hypochord || neural groove || notochord || neural plate
Second domain of FERM	0.2699	INHERITED FROM: trigeminal nerve
Hemopexin-like domain	0.3122	INHERITED FROM: mesodermal cell || notochord || fibroblast
Cell cycle control phosphatase, catalytic domain	0.3204	INHERITED FROM: neuroectoderm || neural plate || chordal neural plate
Parvalbumin	0.3204	INHERITED FROM: somite || cranial muscle
Higher-molecular-weight phosphotyrosine protein phosphatases	0.3262	INHERITED FROM: retinal ganglion cell layer || retinal inner nuclear layer
I set domains	0.337	INHERITED FROM: pharyngeal mesenchyme || regenerating hindlimb || wound epidermis || retinal ganglion cell layer || retinal inner nuclear layer
VWC domain	0.3411	INHERITED FROM: mesenchyme || endoderm || mesoderm || hypochord || notochord
Frizzled cysteine-rich domain	0.3706	INHERITED FROM: pre-chordal neural plate || mesenchyme || endoderm || lateral plate mesoderm || mesoderm || involuted dorsal mesoderm || midbrain-hindbrain boundary || anterior neural fold || otic vesicle || presomitic mesoderm || somite || presumptive paraxial mesoderm || tail tip || tail fin || neuroectoderm || mouth primordium || neural plate || optic field || neural fold || neurogenic placode || stomodeal-hypophyseal primordium
Spectrin repeat	0.3706	INHERITED FROM: auditory hair cell || epithelial cell || sensory epithelial cell
Lactate & malate dehydrogenases, C-terminal domain	0.3967	INHERITED FROM: bone tissue || skeletal tissue || connective tissue
Linker histone H1/H5	0.3967	INHERITED FROM: bone tissue || skeletal tissue || connective tissue
LDH N-terminal domain-like	0.3967	INHERITED FROM: bone tissue || skeletal tissue || connective tissue
Matrix metalloproteases, catalytic domain	0.4723	INHERITED FROM: mesodermal cell || notochord || fibroblast
Sema domain	0.5378	INHERITED FROM: involuted dorsal mesoderm || cranial placode || midbrain-hindbrain boundary || otic placode || cranial neural crest || neuroectoderm || neural plate || neural crest
Tropomyosin	0.5634	INHERITED FROM: dermomyotome || myotome || multilaminar epithelium || myocyte || myocardium
G proteins	0.582	INHERITED FROM: olfactory sensory neuron || olfactory epithelium
Intermediate filament protein, coiled coil region	0.6045	INHERITED FROM: spinal ganglion || nerve || retinal ganglion cell || retinal inner plexiform layer || vestibulocochlear nerve || cranial nerve || epidermis || epithelium || ganglion || optic nerve || retinal ganglion cell layer || retinal inner nuclear layer
Fibronectin type II module	0.6293	INHERITED FROM: mesenchyme || epithelium
Globins	0.6369	INHERITED FROM: ventral blood island || anterior ventral blood island || hematopoietic stem cell || anterior dorsal lateral plate region
Kringle modules	0.6672	INHERITED FROM: neural groove
Arginine methyltransferase	0.7202	INHERITED FROM: cranial neural crest
Multidrug efflux transporter AcrB transmembrane domain	0.7202	INHERITED FROM: epidermis
Hypoxia-inducible factor Hif2a, C-terminal domain	0.8222	INHERITED FROM: pronephric tubule || otic vesicle || epaxial muscle
Integrin domains	0.8374	INHERITED FROM: mesodermal cell || fibroblast
Ephrin receptor ligand binding domain	0.8498	INHERITED FROM: branchial crest
28-residue LRR	0.8778	INHERITED FROM: epaxial muscle
Proprotein convertase P-domain	0.9175	INHERITED FROM: notochord
Motor proteins	0.9547	INHERITED FROM: musculature of face
Protein kinases, catalytic subunit	0.9881	INHERITED FROM: regenerating hindlimb || head mesoderm
Classic zinc finger, C2H2	1	INHERITED FROM: pre-chordal neural plate || neural plate border || anterior neural fold || pre-chordal neural plate border || anterior neural ridge || neuroectoderm || chordal neural plate || splanchnic layer of lateral plate mesoderm || chordal neural plate border || neural fold
Calmodulin-like	1	INHERITED FROM: epithelial cell || ciliated epidermal cell
Voltage-gated potassium channels	1	INHERITED FROM: retinal inner plexiform layer || optic nerve
Fibronectin type III	1	INHERITED FROM: retinal ganglion cell layer || retinal inner nuclear layer
Tetramerization domain of potassium channels	1	INHERITED FROM: retinal inner plexiform layer || optic nerve || retinal ganglion cell layer || retinal outer plexiform layer
TSP-1 type 1 repeat	1	INHERITED FROM: hypochord
Plexin repeat	1	INHERITED FROM: cranial placode || otic placode || cranial neural crest || neuroectoderm || neural crest
Rhodopsin-like	1	INHERITED FROM: granule cell layer of the olfactory bulb || eye photoreceptor cell