Gene detail

Detailed information of OS493_020237-T1 in Lophelia pertusa

Genomic Location: scaffold_74:617233...623462
NR annotation: KAJ7384657.1, Berardinelli-Seip congenital lipodystrophy 2 (seipin) [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
Q96G97	Seipin OS=Homo sapiens OX=9606 GN=BSCL2 PE=1 SV=3
Q5FVJ6	Seipin OS=Rattus norvegicus OX=10116 GN=Bscl2 PE=1 SV=1
Q5E9P6	Seipin OS=Bos taurus OX=9913 GN=BSCL2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006500 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06775 all species →	Seipin	Putative adipose-regulatory protein (Seipin)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009617 all species →	Family	Seipin family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21212 all species →	BERNARDINELLI-SEIP CONGENITAL LIPODYSTROPHY 2 HOMOLOG BSCL2 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019915 all species →	Biological Process	lipid storage	Interproscan
GO:0030176 all species →	Cellular Component	obsolete integral component of endoplasmic reticulum membrane	Interproscan
GO:0034389 all species →	Biological Process	lipid droplet organization	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_020237-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_020237-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

43.6Max TPM

26.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.59	43.58
polyp at pH7 6	18	18	25.29	40.44
coral polyp · control treatment	16	16	33.95	41.49
coral polyp · oil and dispersant treatment	16	16	28.91	39.74
coral polyp · oil treatment	16	16	30.06	42.64
coral polyp · dispersant treatment	16	16	21.11	36.94
Polyp	10	10	16.01	24.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.58
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.64
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.09
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.67
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.56
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.87
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.51
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.81
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.29
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.35
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.97
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.72
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.99
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.20
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.99
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.74
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.99
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.75
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.79
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.79
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.69
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.26
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.79
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.96
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.62
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.34
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.87
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	24.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.20
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	15.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.03
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.77
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.16
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.63

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.