Gene detail

Detailed information of ENSQPTP00000006967.1 in Actinia mediterranea

Genomic Location: chr13:11962612...11968710
NR annotation: XP_031549143.1, cryptochrome-1-like [Actinia tenebrosa]
Species Actinia mediterranea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSQPTT00000008640

GACTCAcgtccaagatggcggatcgCAGGACAAAAGTCACGTTACGTAAccaaataagaataataaatgaaaaatggcgggtaaaaaaacacataataCTATCCACTGGTTCCGTAAGGGATTGCGGCTTCATGATAATCCATCGTTGAAGGAAGCCTTTGAATCTAGTGTGAATATTCGGCCTATTTATGTCCTGGATTCGGATGATGTTCAACATGGGAATATTGGGGTCGTGAGATGGCGGTTTGTGCTGCAGTCTTTGGAAGATCTTGACAGGAGTTTGAGGAAACTGAATTCAAGGTTATTTGTGGTAAGGGGCAAGCCCACAGTCCTATTCCCAAAGCTTTTCAAAGAGTGGAATATTACCAAGCTGACATTTGAAGTTGACACAGATGGTCCAGCAAGACAACGAGATGCAGAGATTATCAAGCTTGCAAATGATGCTGGTGTAGACGTGGTTCAGAAAGTTTCTCACACACTTTACAATCTCGATGATGTTTTGGGCAAGAACCTAGGCAGAGCTCCTTCAACATACAAAAGTTTTCAAGCTGTAATTTCATCCCTCGGCCCTCCTGAGGCACCAATACCTACTATCGAGGAAACTGATGTTGGAGAATGTAAGACACCCATTGAAGATGATCATGATAGATTGTATGGTCTGCCAACACTAGAAGAGATAGGACTTACAGTTCCTGATGAGTcaaaggaggttttatatccaGGTGGAGAAACAGAAGCTTTGAGAAGAATGCATGAGTACATGGCTAAAGAGGATTGGGTGTGCAAGTTTGAAAAACCAAATACCTCGCCAAACTCTCTTGAACCTAGTACTACAGTTCTGAGTCCCTACCTGACTTTTGGTTGTCTGTCAGCAAGATTGTTCTATGTTCAACTTTCTGACATCTACTCTAGGgccaaaaagcaCTCCCAGCCTCCTGTTTCTCTGTATGGCCAGCTACTGTGGAGAGAGTTCTTTACTACTTGTGCCTACAATATTCCAAACTTTAACAGAATGGAGGGAAACCCTGTGTGTCTACAGATCCCTTGGGATAAGAATGATGAATATTTGAAGGCTTGGGAAGAGGCTCGAACTGGTTACCCCTTCATAGACGCTATCATGACCAAACTAAGAAGAGAAGGCTGGATCCATCACTTAGCACGCCATGCTGTAGCATGTTTTCTAACCCGAGGTGACTTGTGGATCAGCTGGGAGGAAGGCCTCAAGGTATTCGAGAATCTCCTAATCGACCATGACTGGAGTCTGAACGCTGGCAACTGGATGTGGCTGTCTGCCAGCGCGTTTTTTCATGCGTATTTCAGGGTTTATAGTCCTGTGGCTTTTGGCAAGAAGACGGACCCTAACGGTGACTTTATCAGGAAATATATTCCCATATTGAAGCGTTTTCCCGCCAAGTACATCTACGAGCCATGGAACTCTCCCCTGAACGTACAAGAGAAGGCTGGATGTATGATCGGTAAGGACTATCCTCGTCCTATCATCGAACATAGCAAAGCCGTAGCCAAAAATCTAGCGAGAATGAAGAAAGCAAGGGAAGCAAAGTATGGGTCCAAAGAAAGTAATCCAGaaAAAGCGACCAAAACGTCTCCCTCGAAACGAAAAAGCACCTCCAAAGACGATAAAACTGCAAAGAAAGTTAGAAAAATAACAGACTTTACGACTTAAGCCTCTTGTTGGAACTCAATTTACACCAACGTCTTTTTTCCTTGGTTATTGATTCATCCATGAGAGACTATTAGCACGTGACACACATCACGTGACTGGATCGTGACGTCATGAAGCACTACACCCAACCCACCCCTCTCATGAAAAAATTGAATCTGAATTCatatttaatgttaaaaatgtaCAAAGGCTTTGGATATTAATTTCTTGgttattgtttattaaaacATGCATAGTACATCCATGGTTGATAGACCTTGAAGTATTTATCCTCAATCTTTTATCTGTTTACGTCATTTCACTAATAACAGCAATAGCTTACATTATGCCTTATTATCACCTTATTATCAACCTCTTACTATGGTTGATGTCAATAGTCTTGAGtggatatatatttttacctttATTCTACACTTCCCGTGGCAAGCTTAGCAGTTAACTGGCTTCACTAGAATCACAATAATAGTTCATGATTAGCTTTGACTTAACATAGCTGTTAACTTTCCCAATCAAGGGGAAAGTCAACCACTAAATCTATGACTAAATCTATGCGTTGCTCTTCACTTGTTCGTCCTGTTCCACTCCTTGTTGTTCATAAGAGTTGACAGTGACGTCAGCAGTGGTAACAGGAGGACGGGTCACGTGGGCAGGTACACGACGATTACGTAACATCTTGACCGACAGGAGAATGGTAACGAGAAGGAAAAGTCCACCAACAGCAGCCAATCCACCAATTAGAGGCAAGCTCGCCTTGGATGACCCT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q32Q86	Cryptochrome-1 OS=Rattus norvegicus OX=10116 GN=Cry1 PE=1 SV=1
P97784	Cryptochrome-1 OS=Mus musculus OX=10090 GN=Cry1 PE=1 SV=1
Q16526	Cryptochrome-1 OS=Homo sapiens OX=9606 GN=CRY1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001194 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00875 all species →	DNA_photolyase	DNA photolyase	Domain	Interproscan
PF03441 all species →	FAD_binding_7	FAD binding domain of DNA photolyase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006050 all species →	Domain	DNA photolyase, N-terminal	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR036134 all species →	Homologous_superfamily	Cryptochrome/DNA photolyase, FAD-binding domain-like superfamily	Interproscan
IPR002081 all species →	Family	Cryptochrome/DNA photolyase class 1	Interproscan
IPR036155 all species →	Homologous_superfamily	Cryptochrome/photolyase, N-terminal domain superfamily	Interproscan
IPR005101 all species →	Domain	Cryptochrome/DNA photolyase, FAD-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11455 all species →	CRYPTOCHROME	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003904 all species →	Molecular Function	deoxyribodipyrimidine photo-lyase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0032922 all species →	Biological Process	circadian regulation of gene expression	Interproscan
GO:0043153 all species →	Biological Process	entrainment of circadian clock by photoperiod	Interproscan
GO:0071949 all species →	Molecular Function	FAD 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
K02295	CRY; cryptochrome	-	Circadian rhythm	ko04710	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 Actinia mediterranea 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 Actinia mediterranea, 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.	template found	open →
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.	template found	open →
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 →