Gene detail

Detailed information of OS493_018420-T1 in Lophelia pertusa

Genomic Location: scaffold_61:531538...533549
NR annotation: KAJ7391377.1, hypothetical protein OS493_018420 [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
Q6NVF4	DNA helicase B OS=Mus musculus OX=10090 GN=Helb PE=1 SV=2
Q8NG08	DNA helicase B OS=Homo sapiens OX=9606 GN=HELB PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008389 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13538 all species →	UvrD_C_2	UvrD-like helicase C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR027785 all species →	Domain	UvrD-like helicase C-terminal domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_018420-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_018420-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_018420-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_018420-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

105TPM > 0

7Conditions

28.9Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.14	6.41
polyp at pH7 6	18	15	2.42	5.74
coral polyp · control treatment	16	16	4.53	17.47
coral polyp · oil and dispersant treatment	16	16	5.12	28.93
coral polyp · oil treatment	16	16	2.91	14.65
coral polyp · dispersant treatment	16	15	3.24	13.79
Polyp	10	9	2.56	5.72

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	-	6.41
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.72
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.47
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.58
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.89
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.99
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.65
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.83
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.72
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.72
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.17
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.