Gene detail

Detailed information of OS493_004401-T1 in Lophelia pertusa

Genomic Location: scaffold_8:6084700...6095327
NR annotation: KAJ7387407.1, putative E3 ubiquitin-protein ligase HTD4 [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
Q9Y4D8	Probable E3 ubiquitin-protein ligase HECTD4 OS=Homo sapiens OX=9606 GN=HECTD4 PE=1 SV=5
Q15751	Probable E3 ubiquitin-protein ligase HERC1 OS=Homo sapiens OX=9606 GN=HERC1 PE=1 SV=2
Q3U487	E3 ubiquitin-protein ligase HECTD3 OS=Mus musculus OX=10090 GN=Hectd3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006153 (this species only)
Ubiquitin family	E3\|E3 activity\|HECT · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00632 all species →	HECT	HECT-domain (ubiquitin-transferase)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000569 all species →	Domain	HECT domain	Interproscan
IPR043366 all species →	Family	HECTD4	Interproscan
IPR035983 all species →	Homologous_superfamily	HECT, E3 ligase catalytic domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46435 all species →	E3 UBIQUITIN-PROTEIN LIGASE HECTD4-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0042593 all species →	Biological Process	glucose homeostasis	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_004401-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_004401-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

27.5Max TPM

14.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.26	24.45
polyp at pH7 6	18	18	17.56	27.48
coral polyp · control treatment	16	16	16.77	25.30
coral polyp · oil and dispersant treatment	16	16	12.05	23.58
coral polyp · oil treatment	16	16	14.93	22.04
coral polyp · dispersant treatment	16	16	11.74	20.50
Polyp	10	10	9.29	14.94

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.17
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.30
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.34
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.27
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.75
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.14
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.63
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.42
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.24
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.79
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.44
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.67
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.27
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.26
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.80
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.26
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.62
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.44
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.65
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.44
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.82
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.64

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.