Gene detail

Detailed information of OS493_003916-T1 in Lophelia pertusa

Genomic Location: scaffold_8:308772...318072
NR annotation: KAJ7386956.1, Integral membrane protein dgcr2/IDD [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004322 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_003916-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR042378 all species →	Family	Integral membrane protein DGCR2/IDD	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15256 all species →	INTEGRAL MEMBRANE PROTEIN DGCR2/IDD	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	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_003916-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_003916-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

61.2Max TPM

30.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.37	50.15
polyp at pH7 6	18	18	29.69	36.76
coral polyp · control treatment	16	16	39.91	61.16
coral polyp · oil and dispersant treatment	16	16	27.63	40.90
coral polyp · oil treatment	16	16	30.24	59.29
coral polyp · dispersant treatment	16	16	31.96	53.46
Polyp	10	10	22.27	38.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.88
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.93
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.09
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.68
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.20
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.32
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.15
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.85
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.44
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.03
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.98
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.59
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.51
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.14
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.92
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.18
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.64
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.90
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.44
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.13
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.20
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.35
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.75
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.37
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.82
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.78
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.67
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.40
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.87
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.46
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.53
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.86
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.92
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	38.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	32.25
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	31.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.68
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.31

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.