Gene detail

Detailed information of OS493_002919-T1 in Lophelia pertusa

Genomic Location: scaffold_6:2249206...2256860
NR annotation: KAJ7340189.1, Growth factor receptor-bound protein 2 [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
Q66II3	Growth factor receptor-bound protein 2 OS=Xenopus tropicalis OX=8364 GN=grb2 PE=2 SV=1
P62993	Growth factor receptor-bound protein 2 OS=Homo sapiens OX=9606 GN=GRB2 PE=1 SV=1
Q60631	Growth factor receptor-bound protein 2 OS=Mus musculus OX=10090 GN=Grb2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001820 (this species only)
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan
PF07653 all species →	SH3_2	Variant SH3 domain	Domain	Interproscan
PF00017 all species →	SH2	SH2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR036860 all species →	Homologous_superfamily	SH2 domain superfamily	Interproscan
IPR043539 all species →	Family	Grb2-like	Interproscan
IPR000980 all species →	Domain	SH2 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46037 all species →	PROTEIN ENHANCER OF SEVENLESS 2B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0001784 all species →	Molecular Function	phosphotyrosine residue binding	Interproscan
GO:0005154 all species →	Molecular Function	epidermal growth factor receptor binding	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0008180 all species →	Cellular Component	COP9 signalosome	Interproscan
GO:0043408 all species →	Biological Process	regulation of MAPK cascade	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
K04364	GRB2; growth factor receptor-bound protein 2	-	Membrane trafficking	ko04131	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_002919-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

63TPM > 0

7Conditions

4.4Max TPM

0.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	0.98	3.27
polyp at pH7 6	18	5	0.60	4.37
coral polyp · control treatment	16	12	0.70	2.56
coral polyp · oil and dispersant treatment	16	8	0.41	1.84
coral polyp · oil treatment	16	10	0.52	2.76
coral polyp · dispersant treatment	16	11	0.47	1.90
Polyp	10	6	0.35	1.39

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.46
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.57
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.50
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.27
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.21
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.33
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.26
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.