Gene detail

Detailed information of OS493_031190-T1 in Lophelia pertusa

Genomic Location: scaffold_212:247286...254706
NR annotation: KAJ7383020.1, hypothetical protein OS493_031190, 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
Q3U487	E3 ubiquitin-protein ligase HECTD3 OS=Mus musculus OX=10090 GN=Hectd3 PE=1 SV=2
Q5T447	E3 ubiquitin-protein ligase HECTD3 OS=Homo sapiens OX=9606 GN=HECTD3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001728 (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
IPR035983 all species →	Homologous_superfamily	HECT, E3 ligase catalytic domain	Interproscan
IPR042469 all species →	Family	E3 ubiquitin-protein ligase HECTD3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46654 all species →	E3 UBIQUITIN-PROTEIN LIGASE HECTD3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase 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_031190-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_031190-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

46.3Max TPM

16.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.76	18.89
polyp at pH7 6	18	18	12.63	18.34
coral polyp · control treatment	16	16	22.15	46.29
coral polyp · oil and dispersant treatment	16	16	20.85	34.84
coral polyp · oil treatment	16	16	16.45	27.87
coral polyp · dispersant treatment	16	16	16.81	24.12
Polyp	10	10	11.53	17.09

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.05
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.87
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.75
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.28
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.84
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.09
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.43
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.29
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.20
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.22
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.87
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.47
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.11
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.58
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.72
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.84
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.55
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.76
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.54
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.32
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.92
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.41
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.78
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.80
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.11
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.81
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.93
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.15
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.16
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.09
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	13.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.21
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.39

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.