Gene detail

Detailed information of OS493_028742-T1 in Lophelia pertusa

Genomic Location: scaffold_168:451315...454720
NR annotation: KAJ7326019.1, hypothetical protein OS493_028742 [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
P23092	Transforming protein cbl OS=Cas-NS-1 murine leukemia virus OX=11793 GN=V-CBL PE=3 SV=1
Q8K4S7	E3 ubiquitin-protein ligase CBL-B OS=Rattus norvegicus OX=10116 GN=Cblb PE=1 SV=1
Q6DFR2	E3 ubiquitin-protein ligase CBL-B OS=Xenopus tropicalis OX=8364 GN=cblb PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006313 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02761 all species →	Cbl_N2	CBL proto-oncogene N-terminus, EF hand-like domain	Domain	Interproscan
PF02262 all species →	Cbl_N	CBL proto-oncogene N-terminal domain 1	Domain	Interproscan
PF02762 all species →	Cbl_N3	CBL proto-oncogene N-terminus, SH2-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014741 all species →	Domain	Adaptor protein Cbl, EF hand-like	Interproscan
IPR003153 all species →	Domain	Adaptor protein Cbl, N-terminal helical	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR024159 all species →	Domain	Adaptor protein Cbl, PTB domain	Interproscan
IPR036860 all species →	Homologous_superfamily	SH2 domain superfamily	Interproscan
IPR036537 all species →	Homologous_superfamily	Adaptor protein Cbl, N-terminal domain superfamily	Interproscan
IPR024162 all species →	Family	Adaptor protein Cbl	Interproscan
IPR014742 all species →	Domain	Adaptor protein Cbl, SH2-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23007 all species →	CBL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0007166 all species →	Biological Process	cell surface receptor signaling pathway	Interproscan
GO:0001784 all species →	Molecular Function	phosphotyrosine residue binding	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0007175 all species →	Biological Process	negative regulation of epidermal growth factor-activated receptor activity	Interproscan
GO:0017124 all species →	Molecular Function	SH3 domain binding	Interproscan
GO:0023051 all species →	Biological Process	regulation of signaling	Interproscan
GO:0030971 all species →	Molecular Function	receptor tyrosine kinase binding	Interproscan
GO:0045121 all species →	Cellular Component	membrane raft	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase 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_028742-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_028742-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

25.6Max TPM

11.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.38	13.22
polyp at pH7 6	18	18	7.34	13.56
coral polyp · control treatment	16	16	14.27	25.56
coral polyp · oil and dispersant treatment	16	16	16.61	24.91
coral polyp · oil treatment	16	16	11.16	24.02
coral polyp · dispersant treatment	16	16	15.44	23.85
Polyp	10	10	3.87	6.05

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	-	13.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.78
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.95
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.13
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.82
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.03
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.03
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.46
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.91
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.11
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.22
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.64
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.30
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.98
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.31
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.48
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.55
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.52
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.68
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.80
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.62
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.74
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.96
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.15
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.58
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.18

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.