Gene detail

Detailed information of OS493_005316-T1 in Lophelia pertusa

Genomic Location: scaffold_10:5131851...5132671
NR annotation: KAJ7374956.1, hypothetical protein OS493_005316 [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)	OG0006375 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18442 all species →	G2BR	E3 gp78 Ube2g2-binding region (G2BR)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040675 all species →	Domain	E3 ubiquitin-protein ligase AMFR, Ube2g2-binding region	Interproscan

PANTHER

No PANTHER signature was detected for OS493_005316-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_005316-T1. This gene does have a gene model — the search simply returned no hit.

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_005316-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_005316-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

52.0Max TPM

15.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	20.07	43.65
polyp at pH7 6	18	18	17.95	40.56
coral polyp · control treatment	16	16	12.86	41.44
coral polyp · oil and dispersant treatment	16	16	16.88	43.84
coral polyp · oil treatment	16	16	10.95	31.27
coral polyp · dispersant treatment	16	16	16.45	52.00
Polyp	10	10	13.91	26.40

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	-	43.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.48
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.83
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.70
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.30
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.12
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.77
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.51
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.75
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.56
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.88
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.57
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.15
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.88
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.90
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.56
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.16
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.09
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.54
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.25
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.90
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.71
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.45
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.55
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.08
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.09
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.28
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.04
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.41
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.85
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.09
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.15
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.21

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.