Gene detail

Detailed information of OS493_002917-T1 in Lophelia pertusa

Genomic Location: scaffold_6:2230070...2230398
NR annotation: KAJ7340187.1, hypothetical protein OS493_002917 [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
Q6YKA8	Protein E(sev)2B OS=Drosophila simulans OX=7240 GN=drk PE=3 SV=1
Q08012	Growth factor receptor-bound protein 2 OS=Drosophila melanogaster OX=7227 GN=drk PE=1 SV=1
P62993	Growth factor receptor-bound protein 2 OS=Homo sapiens OX=9606 GN=GRB2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001820 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan

InterPro

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

No KEGG orthology assignment for OS493_002917-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_002917-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

105.0Max TPM

40.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	20.88	34.84
polyp at pH7 6	18	18	25.32	39.96
coral polyp · control treatment	16	16	59.54	97.68
coral polyp · oil and dispersant treatment	16	16	61.66	105.01
coral polyp · oil treatment	16	16	44.61	77.20
coral polyp · dispersant treatment	16	16	50.93	74.09
Polyp	10	10	13.01	22.55

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	-	34.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.09
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.65
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.56
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.10
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.69
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.92
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.13
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.01
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.91
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.56
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.76
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.30
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.19
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.90
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.60
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.63
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.77
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.74
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.20
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	22.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.45
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	16.10
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.04
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.58

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.