Gene detail

Detailed information of OS493_012071-T1 in Lophelia pertusa

Genomic Location: scaffold_31:1477575...1483130
NR annotation: KAJ7392409.1, Rho- BTB domain-containing protein 1 [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
Q9DAK3	Rho-related BTB domain-containing protein 1 OS=Mus musculus OX=10090 GN=Rhobtb1 PE=1 SV=2
O94844	Rho-related BTB domain-containing protein 1 OS=Homo sapiens OX=9606 GN=RHOBTB1 PE=1 SV=2
O94955	Rho-related BTB domain-containing protein 3 OS=Homo sapiens OX=9606 GN=RHOBTB3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007917 (this species only)
Ubiquitin family	E3\|E3 adaptor Cullin RING\|BTB · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00651 all species →	BTB	BTB/POZ domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000210 all species →	Domain	BTB/POZ domain	Interproscan
IPR011333 all species →	Homologous_superfamily	SKP1/BTB/POZ domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24413 all species →	SPECKLE-TYPE POZ PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0030162 all species →	Biological Process	regulation of proteolysis	Interproscan
GO:0031625 all species →	Molecular Function	ubiquitin protein ligase binding	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

No KEGG orthology assignment for OS493_012071-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_012071-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

40.6Max TPM

16.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.30	24.59
polyp at pH7 6	18	18	15.85	29.39
coral polyp · control treatment	16	16	24.16	40.60
coral polyp · oil and dispersant treatment	16	16	18.98	30.74
coral polyp · oil treatment	16	16	17.04	28.69
coral polyp · dispersant treatment	16	16	11.86	18.33
Polyp	10	10	8.16	16.40

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.59
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.50
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.39
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.24
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.65
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.04
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.50
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.56
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.81
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.21
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.41
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.68
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.69
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.19
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.98
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.33
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.12
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.03
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.12
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.88
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.31
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.42
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.62
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.86
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.80
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.28
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.23
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.33

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.