Gene detail

Detailed information of ENSLDHP00000029782.1 in Eunicella cavolini

Genomic Location: chr3:45311709...45328844
NR annotation: CAB3998956.1, breast cancer type 1 susceptibility isoform X1, partial [Paramuricea clavata]
Species Eunicella cavolini · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSLDHT00000032382

CGCTGTATTCGGAAAGTAGTCGATGAAAGAAAAGAGAAAAAACGGGAAGCGCTTTGTCCCCTTTGTAAGAACCCAATAACGAAAAGGGGGTTAACGTCTAACCCAAGGCTCAAGCAAATTGTTGATGTGGTCAGAAAACTAAACGTTGCTTTTCAAGCAGATTCCGACATATTAGAATCTCCTTATCCTCTGGTTAATTCAAGGCTCACGCGTTTCAATCCGACTTTGCTAAAGCCTGTGAAGTCTAAATTATCTAATATTTGTTTCGTTGTcgtatatactgtatacagcAGCGTTAATCGTCAGCCATCCAAAGATAGCCTCCACCTCGGTGAACAAGCAGAACAACCCGGGCATGAAAAATCTATATCACCTCGGGAAGTTGTTTCTCAACAACGAAGAAGTTCGGGCTTTGAAATTCTTTCGCTCTTGGAAAGTGAAGAGGACGCTCAAGCAGAACCACCAACAAAATGTGCAGATGAAGAAGTTAAGCAAAACGACGAGCCTTCGCAAAAAAATTGTCGGAATACAGACCATCCAACTACCAGGAGATCGTCTCAACTTAATCAATCCCAGCTGACAGCAAAAAGCCCGGAGAATGTCAACACAGCTGATGCAAAAAGCTCAGGTTCGTTAACCATTGACGCGGGAAATTCGTCACAGTCAAGTGTATTATCCGACAATAGTGTGTCCATGTTAGATGGTTTACTGTCACAGCAACAGTCTGGAGGTAAAGCACGAGTTCAGAATAAGAACATTGAAGAATTGGATCTTGAGGTTCCAGGTGCAGAAGTAGAAGAACCACATCACTCACCGACAGTTATTTTACAAGATGTTTCAAAACCTCACCAAGAGAATGACGATACCTCTCCTCTGCATACATGCAACTTCGAAAGAGCTGCTTATAATCTCATCGGAAACTCAAATGACGTGCTTCCAGAATCTCCCGGTGATAAACATGAGTTCAAACGAACACCTGAAGTTGACAGGAGTGAAAGTAAGCCAAATCCTTCATCTATGGATAGCAACAAACGTATTACAGTCGGCACAACAACACCAGAAGCTGGCAGGGGCAAAAGGCTGGAAAGTAATGCTTCAGTAAGTTCCAACAAAAGTAATTCAATCGAAAGAACATCTGACCAGCATACCAGTGAGTGTGTACCAGATAGTGTGGAATCAGATTCACAGTTATACCAAGTAATCCCCTTACCTCCGCATGAAGAATATTCAGACCATGTAATCTCAGCTGAATTTCCGAGTCTTCGTTCCTACGTTCTTTCAAGAGGAGAAAAGAACTACTGTCACGATGAAATTAAGAGTCCTGTTGCTGACCACATTTCAAGTGAAGATGAGCTGTGCTTATCGGTAGAGAAGGAGCCAACGTTTGATCCAATTCAAACTGCGGTGTCTAATGTTGAACCTGAAAACTGTAGAAATTCTGAAGCATCAGTCTTATCGCCTTCACAGTCTGGGAGGACCGTCCGTCACCAGAAATCCAAAAGGAAGCGCTGTGTAGAAAACTATAATGAGGTCTCGCCAGAATTCCCGAGTGCGTATTCTCGCCGCGTTTTTTCAGGAGGAAAAAAGGaaaaatgttttgatgaaaTTATTAATCCCACTGCTGTGGAAATTTCAAGTCAAGATGAGTTATGCGTATCATCAGAAAAAGAGTCAGAGCGTGACGCAGTACGAATTGAACAACCTGAGGTTGCACCTTGTGTAGAGAGTGTTCCCAATCCTGAGAATTCTAAAAATTCTGAAGCATCGGTCATATCGCCATCACAATCTGGGAGTTCTTTCCGTCATCATAAATCCAAAAGAAAGCGCAGTGTAGGAGACAATGAATCTTTGAAGAAGTGTCCACGACTCAGCGATGAAGCGAACATGTCTAAGATTTCCAGTGAGAATGACAAAGAAACTTTCAATGATACTGTTCAAGAAGTTGGTAAGGGAACTTCAAATAATATACATACTAAGATGGGAGATCCTAAAATGGAAAATTTAAGAACTGATAAACTTCCATCTTCTAAACTTCCATCTCAAAAAGCTAACAGATCTGACGATAGCGAGGACGACATAATCCCGCCCACACCCCCCGTGCGGATGGATGTGGAATGCGCACCTCATAACAAGGGTTCTACGATAAAGTTATTGAACCAGTCAAAGACTTCACGAGCGCAACATGTCACTGGCGGGAATAAGCATGTGTACGGTAATGACGGAATTTACGAAGATTGCTTTAGAGATGAAGTAAGCGATGATGAAGAAGAACAGTTATTGTCGTCAAGATCACAAAAGCTTGCGAAAGTTAAGAAACATAAGCACGAAAATGAACTAGTTGATGAAAATGATGGTTTAATAAGTGAAGCAGGTGATGATAATAAAGAGACTTCGCGATCGCCAAATATCATCAGGGGAAAGGAATTTATGAGTGAAAACGAAGGTATTGATTCTTCAGATGATTTGTTCAAAGCCGATGATTGTGATGATAAAGGAGAGTTAATGGTTGTCAGTGATGCAGGTCCGATTATAGATGATGATCAAATGTATTCCTCGCAAGAAGATTTAAACATTGTGCTGCTGAGAAAACTTGCCCCTGGATCTGCAAGTCATAAAGAAAGTGGAACGGACAGTGATGGTGAAACAAGCGATTGTAAGAACACTGATACAACGAGCATTTCCTCCCTAACTGATGCTGATGGTGTTGAAGTGTCTTCACAGAGAATTAAATACCTCCATGAAATGGTGGCACAAAAAGGCGGCGAAATTGAAAAACTCACGGCCGATCTAAAGAATTTAAGGAAAAGTGAAGTTAATAAACAACCAAATATACTAATGCATAGTCATGCTGACGAAGATAATGATAAGAGAATGAACAGAGGCAACGACAATTTTGAGAACGACTCTTCTGAGGAAGATTGTGTGTCCGATAAGGAGAACGATATTGGAGATTATGATAGAGATTCCAGTCCCGAAAAGGAAAAGGAGAATAGCGAGACCTCGGACATAgaaaataatatacatataaGAAAGGGCGCCATTCACTCTGATGCCGACGACCAGCAGAACGAAATTGACTCTGACGCTAACGACTCTACTGAAAACGAAAATACGAGGGAGAATGGCAATGAGTACAATTCCTTGTCTGACGATGAGCAGAAGAAAGAGAATGATACAGAAGATGATGTGAACAAAAACGACCAGGTGGTAGAAGTTTGTGATAGCAGTGATCATTGCAGTAGGGGAGACGATGATGGTAGGTACATTGAAAGAGACGAAATCCTCGAACGTTGTACGCTTTCTCCACCGCCAGCACTCGATCTTTCTACCCTCAAGTTGACAAAATTACCTCCTGCGATTAAAAACTTGAAGAAAATGTTGCAGCACGACGTTGACAGTGAGGAAGAACAGGGCAATACCACTTACGAATACTCTGAGCGTTATAAATCTGACCTTCGTAAAACGATAAGTGAACTACAAAAAGTGTTTGGAATAAACAACTCTAACGATGACCCTAATCTGAAGAAGGTAGTCGGCCTAAACAACCGGTCGCATGACGCAAGCAAGGCAAATCATTATAATTTACACCTTGCGGATAAGCCAACGGAAAATCAGGCCAAGAAAAATCAAACTACGTCTGAAGGTAGTCAGAAAGAAAATAGTGCAAAACTCAAACGAACATCTATGTCAAGGGAATTTCCAACCCGGAAATCTCAAGAAAATagcaaacaaaatgaaaatttaaaggaAAACGGAGGACCTCCAGATGCAGTGTTGACAGAGCTAAGGGCAAACACCAGTTCAAGGGCAGACCAAGGTCCAAAACAACGCACGCTTATTTCAATGTTGGGGAATGGTTCGAGCCATGACGCCACGAAGGCACATCAAACTGTTAAATCATCACTCTGTTTTGTTGTAACAAGACTTCCAAAACAGTTCGTGTCTCTTGCAGGTTACCTGGCCAAGCAAAATGGTGGTAGAATGTCTGATGATGTAAGTGAAGAAACGACACACATCATTATGCCTACTGATTCAAAAATGCAAGCCAACCGCAAGAACTACACCATAAAATATTTACTTGGAATTGCGTTGGGAAAGTGGATAGTCAGTCAACTTTGTAACGTTAATAAATCAAACTCACATGTTCCAAATTTGGCTCGTACCACCCGCGAAAACAAGGGACCTCTCCTATTTGAAAGCATTTCAGTTGTTTGTTTTGGTGAATTTAATGCAGCAGTATCACGAGATCAAGTCTGTCAATTGCTCCGGTATTGTGGAGGTAAAATAATCGACATTAGCCATGAATTATTAAAGGCTCATAGTACGATGTCTGACCTGGTTATTATCTGTGATTCAACATTATCACAAAAAACAGGATTGCAAATTAAAGATTTGTGCAAAAGATACAGTACATTTCCTGTATCTGTTGATTGGGTTACAGATAGTGTAGCCAACTACCAGGATTTATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P48754	Breast cancer type 1 susceptibility protein homolog OS=Mus musculus OX=10090 GN=Brca1 PE=1 SV=3
Q864U1	Breast cancer type 1 susceptibility protein homolog OS=Bos taurus OX=9913 GN=BRCA1 PE=1 SV=1
Q6J6I8	Breast cancer type 1 susceptibility protein homolog OS=Gorilla gorilla gorilla OX=9595 GN=BRCA1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005048 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00533 all species →	BRCT	BRCA1 C Terminus (BRCT) domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036420 all species →	Homologous_superfamily	BRCT domain superfamily	Interproscan
IPR031099 all species →	Family	BRCA1-associated	Interproscan
IPR001357 all species →	Domain	BRCT domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13763 all species →	BREAST CANCER TYPE 1 SUSCEPTIBILITY PROTEIN BRCA1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006974 all species →	Biological Process	DNA damage response	Interproscan
GO:0031436 all species →	Cellular Component	BRCA1-BARD1 complex	Interproscan
GO:0035066 all species →	Biological Process	obsolete positive regulation of histone acetylation	Interproscan
GO:0035067 all species →	Biological Process	obsolete negative regulation of histone acetylation	Interproscan
GO:0045717 all species →	Biological Process	negative regulation of fatty acid biosynthetic process	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	Interproscan
GO:0070531 all species →	Cellular Component	BRCA1-A complex	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
K10605	BRCA1; breast cancer type 1 susceptibility protein	EC:2.3.2.27	DNA repair and recombination proteins	ko03400	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 Eunicella cavolini 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 Eunicella cavolini, 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 →