Gene detail

Detailed information of OS493_034072-T1 in Lophelia pertusa

Genomic Location: scaffold_280:376902...399613
NR annotation: KAJ7370143.1, ATP-dependent DNA helicase Q5 [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
D4ACP5	ATP-dependent DNA helicase Q5 OS=Rattus norvegicus OX=10116 GN=Recql5 PE=1 SV=1
O94762	ATP-dependent DNA helicase Q5 OS=Homo sapiens OX=9606 GN=RECQL5 PE=1 SV=2
Q8VID5	ATP-dependent DNA helicase Q5 OS=Mus musculus OX=10090 GN=Recql5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000292 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_034072-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR038190 all species →	Homologous_superfamily	Set2 Rpb1 interacting domain superfamily	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_034072-T1 in Lophelia pertusa.

Gene Ontology

No Gene Ontology signature was recorded for OS493_034072-T1 in Lophelia pertusa.

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_034072-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_034072-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

57.7Max TPM

19.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.92	17.76
polyp at pH7 6	18	18	11.43	19.04
coral polyp · control treatment	16	16	24.50	57.19
coral polyp · oil and dispersant treatment	16	16	24.18	57.70
coral polyp · oil treatment	16	16	27.28	50.91
coral polyp · dispersant treatment	16	16	16.67	53.65
Polyp	10	10	22.10	41.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.93
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.06
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.94
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.54
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.37
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.83
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.13
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.19
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.24
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.58
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.68
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.80
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.51
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.05
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.58
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.21
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.79
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.54
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.11
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.32
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.38
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.26
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.66
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.69
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.53
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	35.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	27.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.67
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.21
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.59

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.