Gene detail

Detailed information of OS493_009258-T1 in Lophelia pertusa

Genomic Location: scaffold_22:1387831...1390695
NR annotation: KAJ7373932.1, negative regulation of chemokine (C-C motif) ligand 5 production [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
Q8VCM5	Mitochondrial ubiquitin ligase activator of NFKB 1 OS=Mus musculus OX=10090 GN=Mul1 PE=1 SV=2
Q969V5	Mitochondrial ubiquitin ligase activator of NFKB 1 OS=Homo sapiens OX=9606 GN=MUL1 PE=1 SV=1
Q4R7G8	Mitochondrial ubiquitin ligase activator of NFKB 1 OS=Macaca fascicularis OX=9541 GN=MUL1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008583 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12483 all species →	GIDE	E3 Ubiquitin ligase	Family	Interproscan
PF13920 all species →	zf-C3HC4_3	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR022170 all species →	Domain	E3 Ubiquitin ligase MUL1-like	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR051652 all species →	Family	MDM2/MDM4 and MUL1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12183 all species →	MITOCHONDRIAL UBIQUITIN LIGASE ACTIVATOR OF NFKB 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0006996 all species →	Biological Process	organelle organization	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	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
K15688	MUL1; E3 ubiquitin-protein ligase MUL1	EC:2.3.2.27	Ubiquitin system	ko04121	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_009258-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

40.2Max TPM

11.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.62	16.27
polyp at pH7 6	18	18	12.29	18.72
coral polyp · control treatment	16	16	16.69	40.24
coral polyp · oil and dispersant treatment	16	16	11.76	27.65
coral polyp · oil treatment	16	16	11.00	19.94
coral polyp · dispersant treatment	16	16	10.72	18.03
Polyp	10	10	9.38	30.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.50
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.27
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.14
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.74
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.53
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.92
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.84
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.42
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.78
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.46
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.21
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.66
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.94
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.63
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.96
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.62
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.36
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	30.54
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.44
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.28

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.