Gene detail

Detailed information of OS493_011548-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2347598...2350034
NR annotation: KAJ7363266.1, hypothetical protein OS493_011548 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010812 (this species only)
Ubiquitin family	E3\|E3 adaptor Cullin RING\|SOCS · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF00023 all species →	Ank	Ankyrin repeat	Repeat	Interproscan
PF07525 all species →	SOCS_box	SOCS box	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR051573 all species →	Family	Ankyrin repeat and SOCS box domain-containing protein	Interproscan
IPR001496 all species →	Domain	SOCS box domain	Interproscan
IPR036036 all species →	Homologous_superfamily	SOCS box-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24136 all species →	SOWAH (DROSOPHILA) HOMOLOG	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:0045732 all species →	Biological Process	positive regulation of protein catabolic process	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	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
K10335	ASB13; ankyrin repeat and SOCS box protein 13	-	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_011548-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

107TPM > 0

7Conditions

6.3Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.10	3.86
polyp at pH7 6	18	17	2.44	6.26
coral polyp · control treatment	16	16	2.81	4.99
coral polyp · oil and dispersant treatment	16	16	1.97	4.39
coral polyp · oil treatment	16	16	2.97	4.87
coral polyp · dispersant treatment	16	16	2.08	4.13
Polyp	10	9	1.31	2.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.36
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.99
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.65
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.29
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.63
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.61
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.28
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.13
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.82
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.75
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.71
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.73
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.53
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.12
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.23
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.