Gene detail

Detailed information of OS493_001315-T1 in Lophelia pertusa

Genomic Location: scaffold_2:8699989...8805179
NR annotation: KAJ7387959.1, Tripartite motif containing 37 [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
Q6PCX9	E3 ubiquitin-protein ligase TRIM37 OS=Mus musculus OX=10090 GN=Trim37 PE=1 SV=1
O94972	E3 ubiquitin-protein ligase TRIM37 OS=Homo sapiens OX=9606 GN=TRIM37 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003976 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00643 all species →	zf-B_box	B-box zinc finger	Domain	Interproscan
PF00917 all species →	MATH	MATH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002083 all species →	Domain	MATH/TRAF domain	Interproscan
IPR037299 all species →	Domain	TRIM37, MATH domain	Interproscan
IPR003649 all species →	Domain	B-box, C-terminal	Interproscan
IPR000315 all species →	Domain	B-box-type zinc finger	Interproscan
IPR053003 all species →	Family	TRIM/RBCC E3 ubiquitin-protein ligases	Interproscan
IPR008974 all species →	Homologous_superfamily	TRAF-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR36754 all species →	E3 UBIQUITIN-PROTEIN LIGASE TRIM37	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005164 all species →	Molecular Function	tumor necrosis factor receptor binding	Interproscan
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0016235 all species →	Cellular Component	aggresome	Interproscan
GO:0031625 all species →	Molecular Function	ubiquitin protein ligase binding	Interproscan
GO:0032088 all species →	Biological Process	negative regulation of NF-kappaB transcription factor activity	Interproscan
GO:0046600 all species →	Biological Process	negative regulation of centriole replication	Interproscan
GO:0051092 all species →	Biological Process	positive regulation of NF-kappaB transcription factor activity	Interproscan
GO:0051865 all species →	Biological Process	protein autoubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase 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_001315-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_001315-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

49.1Max TPM

17.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.36	23.72
polyp at pH7 6	18	18	12.66	16.96
coral polyp · control treatment	16	16	20.04	48.28
coral polyp · oil and dispersant treatment	16	16	19.98	34.70
coral polyp · oil treatment	16	16	22.56	49.08
coral polyp · dispersant treatment	16	16	18.42	34.83
Polyp	10	9	13.99	40.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.72
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.99
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.46
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.44
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.26
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.70
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.82
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.06
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.67
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.32
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.73
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.03
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.55
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.13
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.12
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.08
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.72
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.01
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.40
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.68
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.01
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.84
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.14
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.99
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.58
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	40.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.19
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.63
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.62
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.50
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.