Gene detail

Detailed information of OS493_036209-T1 in Lophelia pertusa

Genomic Location: scaffold_353:276884...279534
NR annotation: KAJ7351659.1, hypothetical protein OS493_036209 [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)	OG0006918 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_036209-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR039577 all species →	Family	E3 ubiquitin-protein ligase Rad18	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14134 all species →	E3 UBIQUITIN-PROTEIN LIGASE RAD18	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0006301 all species →	Biological Process	postreplication repair	Interproscan
GO:0006513 all species →	Biological Process	protein monoubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	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_036209-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_036209-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

108TPM > 0

7Conditions

25.6Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.73	6.75
polyp at pH7 6	18	18	4.58	6.59
coral polyp · control treatment	16	16	5.83	25.58
coral polyp · oil and dispersant treatment	16	16	4.16	15.35
coral polyp · oil treatment	16	16	4.63	7.93
coral polyp · dispersant treatment	16	15	2.20	4.19
Polyp	10	9	3.88	5.74

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.56
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.78
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.58
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.49
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.14
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.19
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.17
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.06
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.58
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.84
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.97
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.19
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.05
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.74
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.93
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.49
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.