Gene detail

Detailed information of OS493_017990-T1 in Lophelia pertusa

Genomic Location: scaffold_58:1516421...1521664
NR annotation: KAJ7372716.1, SPRY domain-containing SOCS box protein 3 [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
Q6PJ21	SPRY domain-containing SOCS box protein 3 OS=Homo sapiens OX=9606 GN=SPSB3 PE=1 SV=2
Q571F5	SPRY domain-containing SOCS box protein 3 OS=Mus musculus OX=10090 GN=Spsb3 PE=2 SV=2
Q3MHZ2	SPRY domain-containing SOCS box protein 3 OS=Bos taurus OX=9913 GN=SPSB3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005365 (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
PF07525 all species →	SOCS_box	SOCS box	Domain	Interproscan
PF00622 all species →	SPRY	SPRY domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035754 all species →	Domain	SPRY domain-containing SOCS box protein 3, SPRY domain	Interproscan
IPR003877 all species →	Domain	SPRY domain	Interproscan
IPR001496 all species →	Domain	SOCS box domain	Interproscan
IPR050672 all species →	Family	F-box/SPRY and SOCS box protein families	Interproscan
IPR001870 all species →	Domain	B30.2/SPRY domain	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan
IPR043136 all species →	Homologous_superfamily	B30.2/SPRY domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12245 all species →	SPRY DOMAIN CONTAINING SOCS BOX PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0019005 all species →	Cellular Component	SCF ubiquitin ligase complex	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	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
K10345	SPSB3, SSB3; SPRY domain-containing SOCS box protein 3	-	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_017990-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

4,236.8Max TPM

354.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	46.75	86.59
polyp at pH7 6	18	18	63.51	112.18
coral polyp · control treatment	16	16	135.74	433.22
coral polyp · oil and dispersant treatment	16	16	195.39	611.14
coral polyp · oil treatment	16	16	111.56	246.04
coral polyp · dispersant treatment	16	16	1,840.75	4,236.75
Polyp	10	10	42.10	73.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.31
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.71
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.67
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.94
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.80
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.39
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.17
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.18
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.75
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.66
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.46
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.22
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.58
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	433.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	420.31
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	193.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.45
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	155.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	115.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.95
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.74
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	611.14
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	285.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	252.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	235.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	195.37
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	179.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	175.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	156.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.53
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	151.36
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.37
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.70
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.42
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	246.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	202.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	153.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	110.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	103.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.59
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.48
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,236.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,014.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,243.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,009.92
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,990.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,283.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,522.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,500.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,375.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,260.52
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,068.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	767.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	725.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	647.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	586.84
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	217.52
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	73.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	67.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	51.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	44.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	43.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	29.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	23.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.24

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.