Gene detail

Detailed information of OS493_032899-T1 in Lophelia pertusa

Genomic Location: scaffold_251:323130...327155
NR annotation: KAJ7352960.1, hypothetical protein OS493_032899 [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
Q5ZML0	BRISC and BRCA1-A complex member 2 OS=Gallus gallus OX=9031 GN=BABAM2 PE=2 SV=1
Q8WN69	BRISC and BRCA1-A complex member 2 OS=Chlorocebus aethiops OX=9534 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_032899-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_032899-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

109TPM > 0

7Conditions

36.0Max TPM

14.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.04	15.24
polyp at pH7 6	18	18	12.42	19.01
coral polyp · control treatment	16	16	21.68	36.00
coral polyp · oil and dispersant treatment	16	16	16.04	32.27
coral polyp · oil treatment	16	16	18.76	33.07
coral polyp · dispersant treatment	16	16	11.43	19.07
Polyp	10	9	9.78	22.47

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.24
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.81
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.79
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.66
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.55
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.50
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.01
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.48
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.62
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.21
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.74
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.10
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.27
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.90
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.57
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.29
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.89
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.03
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.24
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.61
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.02
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.91
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.35
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.55
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.54
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.52
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.47
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.27
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.49
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.54
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.