Gene detail

Detailed information of OS493_040099-T1 in Lophelia pertusa

Genomic Location: scaffold_1731:1817...10288
NR annotation: KAJ7375602.1, ATP-dependent RNA helicase dhx29, partial [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
Q05B79	ATP-dependent DNA/RNA helicase DHX36 OS=Bos taurus OX=9913 GN=DHX36 PE=1 SV=1
Q9H2U1	ATP-dependent DNA/RNA helicase DHX36 OS=Homo sapiens OX=9606 GN=DHX36 PE=1 SV=2
D4A2Z8	ATP-dependent DNA/RNA helicase DHX36 OS=Rattus norvegicus OX=10116 GN=Dhx36 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000674 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00270 all species →	DEAD	DEAD/DEAH box helicase	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR011545 all species →	Domain	DEAD/DEAH box helicase domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR002464 all species →	Conserved_site	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR18934 all species →	ATP-DEPENDENT RNA HELICASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002151 all species →	Molecular Function	G-quadruplex RNA binding	Interproscan
GO:0003678 all species →	Molecular Function	DNA helicase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003724 all species →	Molecular Function	RNA helicase activity	Interproscan
GO:0004386 all species →	Molecular Function	helicase activity	Interproscan
GO:0005622 all species →	Cellular Component	intracellular anatomical structure	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14442	DHX36, RHAU; ATP-dependent RNA helicase DHX36	EC:5.6.2.6	Translation factors	ko03012	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_040099-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

12.4Max TPM

4.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.37	7.47
polyp at pH7 6	18	18	4.55	8.26
coral polyp · control treatment	16	16	5.91	12.40
coral polyp · oil and dispersant treatment	16	16	3.51	9.77
coral polyp · oil treatment	16	16	4.68	10.14
coral polyp · dispersant treatment	16	16	4.18	8.54
Polyp	10	8	3.68	10.21

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.63
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.54
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.51
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.21
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.85
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.86
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.77
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.23
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.79
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.43
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.37
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.67
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.73
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.46
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.43
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.09
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.21
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.81
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
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.