Gene detail

Detailed information of OS493_036018-T1 in Lophelia pertusa

Genomic Location: scaffold_344:197170...203430
NR annotation: KAJ7382287.1, TOM1-like protein 2 [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
Q6ZVM7	TOM1-like protein 2 OS=Homo sapiens OX=9606 GN=TOM1L2 PE=1 SV=1
Q5SRX1	TOM1-like protein 2 OS=Mus musculus OX=10090 GN=Tom1l2 PE=1 SV=1
O88746	Target of Myb1 membrane trafficking protein OS=Mus musculus OX=10090 GN=Tom1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005364 (this species only)
Ubiquitin family	UBD\|Alpha-Helix\|GAT · all ubiquitin genes in this species
Ubiquitin family	UBD\|Alpha-Helix\|VHS · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03127 all species →	GAT	GAT domain	Domain	Interproscan
PF00790 all species →	VHS	VHS domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002014 all species →	Domain	VHS domain	Interproscan
IPR008942 all species →	Homologous_superfamily	ENTH/VHS	Interproscan
IPR004152 all species →	Domain	GAT domain	Interproscan
IPR038425 all species →	Homologous_superfamily	GAT domain superfamily	Interproscan
IPR014645 all species →	Family	Target of Myb protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13856 all species →	VHS DOMAIN CONTAINING PROTEIN FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0005768 all species →	Cellular Component	endosome	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030276 all species →	Molecular Function	clathrin 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

No KEGG orthology assignment for OS493_036018-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_036018-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

195.0Max TPM

64.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	43.24	80.29
polyp at pH7 6	18	18	37.52	52.86
coral polyp · control treatment	16	16	86.47	194.95
coral polyp · oil and dispersant treatment	16	16	95.75	147.44
coral polyp · oil treatment	16	16	73.90	135.22
coral polyp · dispersant treatment	16	16	83.22	153.87
Polyp	10	9	18.72	43.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.91
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.51
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.71
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.82
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.50
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.55
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.46
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.73
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.69
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.78
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	194.95
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	151.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	125.35
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	114.06
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.07
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.88
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.48
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	147.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.41
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.23
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	108.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.95
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.34
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	135.22
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.67
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.50
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.34
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.82
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.01
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	115.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	97.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.38
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	82.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.49
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.09
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.81
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.98
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	43.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	34.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	27.17
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.44
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.49
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.07
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.