Gene detail

Detailed information of OS493_040076-T1 in Lophelia pertusa

Genomic Location: scaffold_1701:56...1900
NR annotation: KAJ7375607.1, E3 ubiquitin-protein ligase HW1, partial [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
Q9P2P5	E3 ubiquitin-protein ligase HECW2 OS=Homo sapiens OX=9606 GN=HECW2 PE=1 SV=2
Q6I6G8	E3 ubiquitin-protein ligase HECW2 OS=Mus musculus OX=10090 GN=Hecw2 PE=1 SV=1
Q76N89	E3 ubiquitin-protein ligase HECW1 OS=Homo sapiens OX=9606 GN=HECW1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000813 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00397 all species →	WW	WW domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001202 all species →	Domain	WW domain	Interproscan
IPR051583 all species →	Family	Yes-associated protein 1	Interproscan
IPR036020 all species →	Homologous_superfamily	WW domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17616 all species →	YES-ASSOCIATED PROTEIN YAP1 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0035329 all species →	Biological Process	hippo signaling	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	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_040076-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_040076-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

88TPM > 0

7Conditions

11.7Max TPM

3.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	5.64	11.03
polyp at pH7 6	18	16	5.16	10.10
coral polyp · control treatment	16	14	2.40	11.02
coral polyp · oil and dispersant treatment	16	9	3.30	11.72
coral polyp · oil treatment	16	11	1.58	7.55
coral polyp · dispersant treatment	16	15	1.99	7.57
Polyp	10	7	1.17	3.43

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	-	11.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.47
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359494	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
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.43
SRR11359512	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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.02
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.84
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.71
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.06
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.72
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.20
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.23
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.28
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.68
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.66
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.38
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.