Gene detail

Detailed information of g963.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_022784843.1, flavin reductase (NADPH)-like isoform X2 [Stylophora pistillata]
Species Calvadosia cruxmelitensis · all data for this species · gene families

Sequence

Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7SIB3	Collagen alpha-2(IV) chain (Fragment) OS=Bos taurus OX=9913 GN=COL4A2 PE=1 SV=1
P17140	Collagen alpha-2(IV) chain OS=Caenorhabditis elegans OX=6239 GN=let-2 PE=1 SV=2
P27393	Collagen alpha-2(IV) chain OS=Ascaris suum OX=6253 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000015 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001438 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001701 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003679 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006638 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011911 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0012018 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0016703 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0026263 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0027587 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0028165 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0061757 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00092 all species →	VWA	von Willebrand factor type A domain	Domain	Interproscan
PF01413 all species →	C4	C-terminal tandem repeated domain in type 4 procollagen	Domain	Interproscan
PF01391 all species →	Collagen	Collagen triple helix repeat (20 copies)	Repeat	Interproscan
PF00250 all species →	Forkhead	Forkhead domain	Domain	Interproscan
PF00001 all species →	7tm_1	7 transmembrane receptor (rhodopsin family)	Family	Interproscan
PF13460 all species →	NAD_binding_10	NAD(P)H-binding	Domain	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF00665 all species →	rve	Integrase core domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan
IPR002035 all species →	Domain	von Willebrand factor, type A	Interproscan
IPR001442 all species →	Domain	Collagen IV, non-collagenous	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR008160 all species →	Repeat	Collagen triple helix repeat	Interproscan
IPR050525 all species →	Family	Extracellular Matrix Assembly and Organization	Interproscan
IPR036954 all species →	Homologous_superfamily	Collagen IV, non-collagenous domain superfamily	Interproscan
IPR047119 all species →	Family	Forkhead box protein N2/3-like	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR001766 all species →	Domain	Fork head domain	Interproscan
IPR030456 all species →	Conserved_site	Fork head domain conserved site 2	Interproscan
IPR017452 all species →	Domain	GPCR, rhodopsin-like, 7TM	Interproscan
IPR000276 all species →	Family	G protein-coupled receptor, rhodopsin-like	Interproscan
IPR016040 all species →	Domain	NAD(P)-binding domain	Interproscan
IPR051606 all species →	Family	Polyketide Oxidoreductase-like	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR008271 all species →	Active_site	Serine/threonine-protein kinase, active site	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR017894 all species →	Domain	HTH domain, IS21 transposase-type	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24020 all species →	COLLAGEN ALPHA	Interproscan
PTHR13962 all species →	FORKHEAD BOX PROTEIN N3-LIKE PROTEIN-RELATED	Interproscan
PTHR24246 all species →	OLFACTORY RECEPTOR AND ADENOSINE RECEPTOR	Interproscan
PTHR43355 all species →	FLAVIN REDUCTASE (NADPH)	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR24347 all species →	SERINE/THREONINE-PROTEIN KINASE	Interproscan
PTHR35004 all species →	TRANSPOSASE RV3428C-RELATED	Interproscan
PTHR33332 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005201 all species →	Molecular Function	extracellular matrix structural constituent	Interproscan
GO:0005581 all species →	Cellular Component	collagen trimer	Interproscan
GO:0000987 all species →	Molecular Function	cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0004930 all species →	Molecular Function	G protein-coupled receptor activity	Interproscan
GO:0007186 all species →	Biological Process	G protein-coupled receptor signaling pathway	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0004074 all species →	Molecular Function	biliverdin reductase [NAD(P)+] activity	Interproscan
GO:0016646 all species →	Molecular Function	oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	Interproscan
GO:0042602 all species →	Molecular Function	riboflavin reductase (NADPH) activity	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K09407	FOXN; forkhead box protein N	-	Transcription factors	ko03000	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Calvadosia cruxmelitensis tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Calvadosia cruxmelitensis, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	sequence table not available	–
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	sequence table not available	–
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →