Gene detail

Detailed information of OS493_029857-T1 in Lophelia pertusa

Genomic Location: scaffold_185:626499...628899
NR annotation: KAJ7354851.1, thioredoxin- transmembrane protein 4 [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
Q0Z7W6	Thioredoxin-related transmembrane protein 1 OS=Bos taurus OX=9913 GN=TMX1 PE=2 SV=1
Q8VBT0	Thioredoxin-related transmembrane protein 1 OS=Mus musculus OX=10090 GN=Tmx1 PE=1 SV=1
Q9H3N1	Thioredoxin-related transmembrane protein 1 OS=Homo sapiens OX=9606 GN=TMX1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007076 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_029857-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR052454 all species →	Family	Thioredoxin-related transmembrane domain-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46107 all species →	DUMPY: SHORTER THAN WILD-TYPE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0012505 all species →	Cellular Component	endomembrane system	Interproscan
GO:0015036 all species →	Molecular Function	disulfide oxidoreductase 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

No KEGG orthology assignment for OS493_029857-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_029857-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

99TPM > 0

7Conditions

31.4Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	4.13	9.62
polyp at pH7 6	18	12	3.06	8.85
coral polyp · control treatment	16	16	9.42	22.53
coral polyp · oil and dispersant treatment	16	16	7.05	31.38
coral polyp · oil treatment	16	16	7.34	16.67
coral polyp · dispersant treatment	16	15	7.28	12.87
Polyp	10	9	3.39	10.84

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	-	9.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.60
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.94
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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	22.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.74
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.14
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.14
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.61
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.72
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.78
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.75
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.72
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.84
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.42
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.32
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.78
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.71
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.