Gene detail

Detailed information of OS493_035998-T1 in Lophelia pertusa

Genomic Location: scaffold_343:103090...125507
NR annotation: KAJ7388720.1, hypothetical protein OS493_035998 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7Z569	BRCA1-associated protein OS=Homo sapiens OX=9606 GN=BRAP PE=1 SV=2
Q99MP8	BRCA1-associated protein OS=Mus musculus OX=10090 GN=Brap PE=1 SV=1
Q95QN6	BRCA1-associated protein homolog 2 OS=Caenorhabditis elegans OX=6239 GN=brap-2 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003415 (this species only)
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species
Ubiquitin family	UBD\|ZnF\|ZnF_UBP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13639 all species →	zf-RING_2	Ring finger domain	Domain	Interproscan
PF02148 all species →	zf-UBP	Zn-finger in ubiquitin-hydrolases and other protein	Domain	Interproscan
PF07576 all species →	BRAP2	BRCA1-associated protein 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047243 all species →	Domain	BRCA1-associated protein, RING finger, H2 subclass	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR001607 all species →	Domain	Zinc finger, UBP-type	Interproscan
IPR011422 all species →	Domain	BRCA1-associated 2/ETP1, RRM	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR034932 all species →	Domain	BRAP2, RNA recognition motif	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24007 all species →	BRCA1-ASSOCIATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007265 all species →	Biological Process	Ras protein signal transduction	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion 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
K10632	BRAP; BRCA1-associated protein	EC:2.3.2.27	Ubiquitin system	ko04121	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_035998-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

24.9Max TPM

10.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.11	17.62
polyp at pH7 6	18	18	13.77	21.83
coral polyp · control treatment	16	16	10.45	15.95
coral polyp · oil and dispersant treatment	16	16	6.79	10.02
coral polyp · oil treatment	16	16	10.62	13.36
coral polyp · dispersant treatment	16	16	6.56	10.99
Polyp	10	10	14.29	24.92

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.59
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.74
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.11
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.24
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.83
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.33
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.42
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.17
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.50
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.24
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.18
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.50
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.67
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.45
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.08
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.84
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.85
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.76
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.02
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.40
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.78
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.69
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.23
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.51
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.08
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.75
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.49
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.99
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.70
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.90
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	24.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.58
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.05
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.77
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.01
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.99

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.