Gene detail

Detailed information of OS493_032900-T1 in Lophelia pertusa

Genomic Location: scaffold_251:327287...328871
NR annotation: KAJ7352961.1, hypothetical protein OS493_032900 [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
B6NXD5	BRISC and BRCA1-A complex member 2 OS=Branchiostoma floridae OX=7739 GN=BABAM2 PE=3 SV=1
Q6DJ78	BRISC and BRCA1-A complex member 2 OS=Xenopus tropicalis OX=8364 GN=babam2 PE=2 SV=1
Q5ZML0	BRISC and BRCA1-A complex member 2 OS=Gallus gallus OX=9031 GN=BABAM2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006755 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06113 all species →	BRE	Brain and reproductive organ-expressed protein (BRE)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010358 all species →	Family	BRCA1-A complex subunit BRE	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15189 all species →	BRISC AND BRCA1-A COMPLEX MEMBER 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0070531 all species →	Cellular Component	BRCA1-A complex	Interproscan
GO:0070552 all species →	Cellular Component	BRISC complex	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	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 OS493_032900-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_032900-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

60.5Max TPM

24.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	22.09	37.27
polyp at pH7 6	18	18	23.73	36.37
coral polyp · control treatment	16	16	34.35	51.21
coral polyp · oil and dispersant treatment	16	16	24.87	60.51
coral polyp · oil treatment	16	16	30.51	43.80
coral polyp · dispersant treatment	16	16	14.61	29.61
Polyp	10	10	21.52	37.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.68
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.37
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.73
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.44
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.53
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.37
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.86
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.21
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.60
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.21
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.59
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.54
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.05
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.58
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.62
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.75
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.99
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.80
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.96
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.25
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.35
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.80
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.74
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.61
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.69
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.76
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.27
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	28.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	26.03
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.04

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.