Gene detail

Detailed information of OS493_019806-T1 in Lophelia pertusa

Genomic Location: scaffold_70:1225233...1225931
NR annotation: KAJ7372359.1, chaperone cofactor-dependent protein refolding [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
O14657	Torsin-1B OS=Homo sapiens OX=9606 GN=TOR1B PE=1 SV=2
Q9ER39	Torsin-1A OS=Mus musculus OX=10090 GN=Tor1a PE=1 SV=1
Q60HG2	Torsin-1A OS=Macaca fascicularis OX=9541 GN=TOR1A PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001479 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06309 all species →	Torsin	Torsin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001270 all species →	Family	ClpA/B family	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR010448 all species →	Family	Torsin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10760 all species →	TORSIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K22990	TOR1; torsin-1	-	Membrane trafficking	ko04131	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_019806-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

20.9Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.16	13.22
polyp at pH7 6	18	17	3.60	6.75
coral polyp · control treatment	16	16	5.73	20.88
coral polyp · oil and dispersant treatment	16	16	4.39	14.27
coral polyp · oil treatment	16	16	4.15	10.27
coral polyp · dispersant treatment	16	16	4.38	13.22
Polyp	10	10	2.13	6.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.92
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.51
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.34
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.66
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.91
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.47
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.30
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.30
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.45
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.21
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.33
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.07
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.06

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.