Gene detail

Detailed information of OS493_029222-T1 in Lophelia pertusa

Genomic Location: scaffold_175:701146...702369
NR annotation: KAJ7389797.1, hypothetical protein OS493_029222 [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)	OG0010931 (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
PF00622 all species →	SPRY	SPRY domain	Family	Interproscan

InterPro

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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
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
GO:0005515 all species →	Molecular Function	protein binding	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_029222-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_029222-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

24.5Max TPM

9.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.42	20.83
polyp at pH7 6	18	18	10.00	16.98
coral polyp · control treatment	16	16	10.09	20.22
coral polyp · oil and dispersant treatment	16	16	5.90	11.27
coral polyp · oil treatment	16	16	10.93	14.55
coral polyp · dispersant treatment	16	16	3.27	6.66
Polyp	10	10	13.14	24.49

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.83
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.94
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.98
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.28
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.79
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.03
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.24
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.42
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.78
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.64
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.55
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.35
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.82
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.65
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.78
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.68
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.83
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.41
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.14
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.21
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.89
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.49
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.94
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.93
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.02
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.34
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.38

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.