Gene detail

Detailed information of OS493_019759-T1 in Lophelia pertusa

Genomic Location: scaffold_70:755663...756664
NR annotation: KAJ7372315.1, 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
Q9ER39	Torsin-1A OS=Mus musculus OX=10090 GN=Tor1a PE=1 SV=1
O14657	Torsin-1B OS=Homo sapiens OX=9606 GN=TOR1B PE=1 SV=2
Q68G38	Torsin-1A OS=Rattus norvegicus OX=10116 GN=Tor1a PE=1 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
PF21376 all species →	TOR1A_C	Torsin-1A, C-terminal domain	Domain	Interproscan
PF06309 all species →	Torsin	Torsin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017378 all species →	Family	Torsin 1/2	Interproscan
IPR049337 all species →	Domain	Torsin-1A, C-terminal domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR001270 all species →	Family	ClpA/B family	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:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0051085 all species →	Biological Process	chaperone cofactor-dependent protein refolding	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_019759-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

28.5Max TPM

10.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.02	17.60
polyp at pH7 6	18	18	8.24	14.54
coral polyp · control treatment	16	16	14.26	28.54
coral polyp · oil and dispersant treatment	16	16	11.50	24.69
coral polyp · oil treatment	16	16	11.86	27.89
coral polyp · dispersant treatment	16	16	9.95	25.83
Polyp	10	10	6.36	14.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.84
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.36
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.17
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.97
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.84
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.61
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.68
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.14
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.33
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.69
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.51
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.39
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.60
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.64
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.22
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.59
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.90
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.90
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.85
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.08
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.14
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.10
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.71
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.15
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.26

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.