Gene detail

Detailed information of alvinactis_v1_g30240 in Alvinactis idsseensis sp. Nov.

Genomic Location: chr_16:15581718...15646603
NR annotation: XP_031562959.1, EF-hand calcium-binding domain-containing protein 6-like [Actinia tenebrosa]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

alvinactis_v1_g30240

ATGTGTCTGGACAAAACACGTCTACTTGTTACAGCAGCCATCAGCCAGCCGGGTAATCCATCAAAGAGGCATCGCGATCGTCTGAACGCGGAGTTGGATAACCTGGCTAGATTGCTGCCTTTTCCAGAGGAAACAGTCACCAAGTTGGATAAAATCTCAATCCTTCGACTGACTGTCAGCTATCTACGAGCAAAGAGTTTTTTTCAAGTTAATGGGAAAAATGGCCAAGAAGAGACATGTGAGGACCTTGTGAGGGAGTTTGAAGGCAATGGATTATTTTCACAGTTATCACTCGAGGCTTTGGATGGATTTATTGTGGTCATTACACAAGATGGACAGCTGTTCTACGTGTCGGAGAACGTGCGAGATTTCCTCGGTTATTCACAGGCTGCCGTCATACACCAAAGTATGTTTAAATTCTTACACATCGATGACCAGGACATAGTGAAGTTAAAACTTGCATGGCCGTACAATATGTCCAAAGATGCTAAGATTGAAACAGAGACATCGAGGCGACGAGATTCCACAACAGGGCGAACAGACAACGAAAAACCCGATTTAAGCGAAATGGAAAAATTAAATCGATCGTTCACTTGCCGTATGAAGTGCACCCTGAACCATGGTGGAGGGTTTTATAAGCTTTTTCGTTTATGTGGTCGTCTACGTGCAATTCAGACGCGAAAAAGGGACAACGATGTTGTGGAATACGGGCTCTTTGCTATTTGTTCCCCGGCGCAGAATTTAAGCAACGGCTCGGCTGGGTCGTCTGTTAAAAAAGAAGTGGCGTTGACTGCCCAGAAAAGATTGGAAAGAACCACTAGTGATCCTCTAGGAAACAGTCCCTTGGCATCGCCCACCGCGTCGTCAGATTCAGGCCATCCGTCCCCCATATCAAGTACCATCAAAACAGGCTTATCTGACCAAGAAATGCAGAGTGACATCAGTGACTTATCAAACTCATCAAAGTCCAGTTTGGAAACAGAAGCGAGGGACCGTATCTACGCCGCCAGTCAAGCCAGATTACAGAGTATGATTCAGAAGCCAAGGACCTACTCCATCCCTGAAAATGATCACGATGATGTATCACGAAAACGTTCCCGAAGCCTCACCGATGCGTCCGAAATCCACCCGAACGATTACGAGCTCATGCGAAAGAATCATCCATACGGCTTTGGTAATGTCAATCTGCCATCCATCGCAGAAATGAAGCACGAAAACCAAACTGGTCCCTCAAATGAAGAGTCAAAAGCAACCTCAGAGGACCAAACCATGAAAACAGAAGGCTTGTCCAGGAGACCGCTGGGTACCTACGACAGCAGGCTCGATGCAGCAAGGGGATTGATGAATCTAGGCGGAATGCATTTACCCATTCCATCTATGTATCCATTTCCAGAGTTTATGTACCCTGACGTGATATTCCCACGTTTCGATGGCATGTCGATGGACGTCCCTCACATGCGCAATCCCTTCGATGTTCACAACCCTTGTTGCATGGGTCGCGACCAGTTCAGTCAACTTGCGATGCGGAGATGGCTCAGTACTCCAGACGATGCGCTACTTCCAGATGCCATTCCCATTTGGGTTCCCATATCAAGCCACAACCATTTTGAAATTCCTTCGGGCATCAACGATCGTCAGATGTCATCAGAGTTTTCTATGAGGCAAAGCCAAAGCCGGCCCGATGGAACGAATTCTGAGGCAACTCCGAGCAAAGCCAAGGACATCCCAACTGACAGTAAGAGAGATGAGGAAAAGCGATCGTCTCCCAAGAGCTGGTCAAGCGAAGTGAATGAAAAAGAAGTTAATGTGGTGAAGATCGAGAATGAAGAGAATGCCAAACACGAGGATTTTCAAACAACATCAACACCACTTCTCAAAGAAAACCTACAAGGCGACTTTGAAACTACAATTACACTGGAAGATAAAGGAGGATTGTCTGTGGTTGTCGTGGCCCCACGGCCACGTTGTGATGCTAAGCAAAGAAATAACCATTCAAGACTGGCTTGTTTACCAAACATAGAGCATCCAAGTCTACGGCGAACAAAAGGCGACCTTGAAATCTATGGCTCGGCTTCACGGGACGGCTCACCGAAGGCTCCACTACCACCACTGCGCACAGAAGAGAATCCACTCTTTCATCCTAAAGGGAGAAAACATTCTAGAGGTTCAACGTGGCCCATCGAACATCAAGGAAACGATTCAAGAGAAGGACAACACTTGATTACACTAACACAGAGCAAGACAGTGGACGAGCTTGAAGATCTCATACATGAGAAACTATCCGCTGGTTTTTATGGCATCAGACAAGCCTTTAAAGCTAATGACCCACAAGGAAAAGGAATAATATCAAGAGAGGCGTTTAAGAAAATCTTGTATCATCTTTGTGGCTATGTGTCTGCAGCACAATTCAACGGACTTCTTCAAAGGTTTGGTGTTGAATCACAATCCATAGCCTTTGACGACTTCATTCGACATTTTAAAGATAACGAGATTGTACAGAAAGAATGGATCGATCCCGTGTTACGTCCCACCAACACCGGGTCTCATCTACCAGCAAACCAGTTAAGAACTCTTCAGCGTCAAGCTGCACTGAAAGAACTCAGTACTAAACAAAAGAACTCCCCAAAACTCTACACCGCTCTACAAGTGTTTCCTATGCTTAAAAAGAAGGTTTACGAGAATTTTCTAGAATTTGCCAAGGTATTGCCAACATCGTGTTTTGAAGTGGACGGCACAGTCCTCAAGCCACAGCTAAGACATGCACTTTTCGTAATGAAGGTTCAAATGTACGATGATGAATTTGACAAagtatgggacagATCAGAGAACAGAAATGAAGATATATTCAATCTTCTTCAAGGAAAATTTCGCCATGGTTACAACAGTGTTTTGGAACTCTGTGGTGCCTTCGATCCAGACAATAGTGGCACTATAACCCGTGGTGAGTTTCGACATGTTTTATCCAAATGTCATCTCAATCTTGGAGCAGTTGAAGTAGAACATTTCCTATCCAGGTTTGGGGTTCGTGACCAAGCGAAGGTGCATTACCGTGATATTCTTGATGCTTTGGAAGACCGAACTGAGAAAGGACTATTACAGAAAATATTAGACGACAGAAAACACAGGTTTAACAGAAGCAGAGAGTCAGATGTAGGTAACACATCAGCAGTAGACGCCGAGGCTAAGTTACTTGATATCATTCATTCCGACTTCCTGGCCTTACTGGCAGCCTTTAAACAACTTGACCGAGAGAGCCTGGGTGTGATCAAGAGATACGAATTCCAGGAAATGCTTGCTGCTCGGTTTGGAATCCAGGTAACGAGAGAACAAACCGAGGACCTTCTCAGGAAGATTGGTGACGAGACCAGCGATGGACTGGTGCCTTATGGGAAATTTCTACAAATGTTCAGCTCGCGCAGGCATCAGGCAGATCTGCGGGAGAAAAGCCCACCCGCTACTGTTCGTCCAGCAACGACTCCACGATCACAACGTCCCTGCACGACACGACCAGCAACTGTTCCAAGTGTTAGACCCCCCACGAACatagaaccacgtgatgtcgataagTTATTGGTTGAAATAGGAAATCTTGTGACGGATAAATATGACGTCATTCAAAAGACATTCATTGGGATCGACAAGACTTCCAGGAACTATGGACATTTAACAAGGGAAACATTTAGAAAACTCTTTGacagACATAATCTAAAGGTGACTACGTCAGAGGTTGATAACCTGTGGAAGAAACTGCCAGTAGAGCGAGACGGTACACTAAACTTTATTGAACTAGTGAAGAGGTGTTTTAAAGAAGTAGGCAAATCCATGCCCACGTCAGACGAGCACAGATTACAAGCTGGTCAGTTGTCTCGAGTTTTACAAAATTTTGCACGAGCTCACGTCAAAGAAATCCTTGAGAGATTCCTCGAAGAAGATGAAGAAAATCAACCGGAAGACGTTCCCATGGTTACCATCTTAGAAGACAAGACTACAACACAAGCTGAACCCATCACCAACGTAGAACCTATTGTGACGTCACCAAAGCTTGACGACATCATTATCAAGATTAAACACGAGATTCGCAATCATTTTACTCAAATTCAAGATGATTATCGTGAAGCAAGGAATGAGAACAAAACCACAATTGATGCAGAATCGTTTATGAACATTCTTCACAAACATTGCAAAAGCTTAAACAACGCTGAATGTAGTAAGCTATGTCAACGATTCGACAAGGAAAACACTGGACGCGTCAAGTACAAAGAGTTCCTTAAGCTGTTTGTACCCACAATGCCAGAGGGTACCGACCCTGTTGCATCTAGATGTCAATCAAGACACCATAGAgcccatactTATCCTACTGCAGTTCGACACACAAATGACGCGCTCAGTGCAGTGATGCACAAAATGAGAAACAAAATGATATCTGACTGGAAGGCGCTACGACGGGCGCTGAAGAAATGTGACGGTAAAGACGATGGAATGATAAGCATCTCTGACTTTAAAACAACCTTAAAGGAATTCGGGTTTCGCCTCAGTGAAGAAGATTTCTTTCACATTTTCTCTGCCTTTGATGTGAATATGGATGGTCAGATGTCGTATGTCGCTTTTATGAAACAAACTGTCATCTCAGAagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcagggcagggcaggagcagggcaggagcagggcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaggagcaGTTTGAGTTTGAGCACATAGTTGATACTGAAAAGCCCTATGGAGACAAGATCATTAAAGTGCGTTCCCAAACTATAGTTTCGCCTGCCTTTGTAATGCAAAGCATGCGATTCACAACCGATAAAGAAAAGATCGAAGGGAAAGAAAATAAACAAATAaagccgattctacacgaacaagttttccttgacaaggaaaacacatcgccaatgtttccttgtcaagtaaaacttgctcgtgtagatgacaaaaaagtgtcaatttttccttgtcaaggaaaacttgtcaaggaaaacttgttcgtgtag

Transcript

alvinactis_v1_g30240

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q95LD9	Aryl hydrocarbon receptor OS=Delphinapterus leucas OX=9749 GN=AHR PE=2 SV=1
P35869	Aryl hydrocarbon receptor OS=Homo sapiens OX=9606 GN=AHR PE=1 SV=2
Q8R4S2	Aryl hydrocarbon receptor OS=Mus spretus OX=10096 GN=Ahr PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006578 (this species only) · gene tree & orthology
Transcription factor family	bHLH · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00989 all species →	PAS	PAS fold	Domain	Interproscan
PF08976 all species →	EF-hand_11	EF-hand domain	Domain	Interproscan
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan
PF00010 all species →	HLH	Helix-loop-helix DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan
IPR013767 all species →	Domain	PAS fold	Interproscan
IPR000014 all species →	Domain	PAS domain	Interproscan
IPR052603 all species →	Family	EF-hand calcium-binding domain-containing protein 6	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR015070 all species →	Domain	DJBP, EF-hand domain	Interproscan
IPR035965 all species →	Homologous_superfamily	PAS domain superfamily	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR001067 all species →	Family	Nuclear translocator	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20875 all species →	EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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

No KEGG orthology assignment for alvinactis_v1_g30240.

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 Alvinactis idsseensis sp. Nov. 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 Alvinactis idsseensis sp. Nov., 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 →