Gene detail

Detailed information of OS493_012168-T1 in Lophelia pertusa

Genomic Location: scaffold_31:2701180...2709236
NR annotation: KAJ7392499.1, hypothetical protein OS493_012168 [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
Q15018	BRISC complex subunit Abraxas 2 OS=Homo sapiens OX=9606 GN=ABRAXAS2 PE=1 SV=2
Q28HX0	BRCA1-A complex subunit Abraxas 1 OS=Xenopus tropicalis OX=8364 GN=abraxas1 PE=2 SV=1
A6QLR3	BRISC complex subunit Abraxas 2 OS=Bos taurus OX=9913 GN=ABRAXAS2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007692 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21125 all species →	MPN_2A_DUB_like	BRCA1-A complex subunit Abraxas 1 MPN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023238 all species →	Family	FAM175 family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31728 all species →	ABRAXAS FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0031593 all species →	Molecular Function	polyubiquitin modification-dependent protein 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

No KEGG orthology assignment for OS493_012168-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_012168-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

19.7Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.89	11.42
polyp at pH7 6	18	18	9.18	18.91
coral polyp · control treatment	16	16	11.11	18.32
coral polyp · oil and dispersant treatment	16	16	10.17	19.69
coral polyp · oil treatment	16	16	10.18	15.44
coral polyp · dispersant treatment	16	16	6.30	11.38
Polyp	10	10	11.97	17.43

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.15
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.48
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.43
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.38
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.83
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.28
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.82
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.14
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.90
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.93
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.69
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.54
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.62
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.70
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.48
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.89
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.90
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.53
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.98
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.87
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.38

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.