Gene detail

Detailed information of OS493_017503-T1 in Lophelia pertusa

Genomic Location: scaffold_56:995414...1005397
NR annotation: KAJ7385132.1, GTPase activating protein (SH3 domain) binding protein [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
Q9UN86	Ras GTPase-activating protein-binding protein 2 OS=Homo sapiens OX=9606 GN=G3BP2 PE=1 SV=2
P97379	Ras GTPase-activating protein-binding protein 2 OS=Mus musculus OX=10090 GN=G3bp2 PE=1 SV=2
Q5R9L3	Ras GTPase-activating protein-binding protein 2 OS=Pongo abelii OX=9601 GN=G3BP2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007518 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02136 all species →	NTF2	Nuclear transport factor 2 (NTF2) domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032710 all species →	Homologous_superfamily	NTF2-like domain superfamily	Interproscan
IPR018222 all species →	Domain	Nuclear transport factor 2, eukaryote	Interproscan
IPR039539 all species →	Family	Ras GTPase-activating protein-binding protein	Interproscan
IPR002075 all species →	Domain	Nuclear transport factor 2 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10693 all species →	RAS GTPASE-ACTIVATING PROTEIN-BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:1990904 all species →	Cellular Component	ribonucleoprotein complex	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
K24983	G3BP2; Ras GTPase-activating protein-binding protein 2	-	Messenger RNA biogenesis	ko03019	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_017503-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

154.8Max TPM

82.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	76.45	96.68
polyp at pH7 6	18	18	81.91	119.91
coral polyp · control treatment	16	16	102.25	154.36
coral polyp · oil and dispersant treatment	16	16	105.71	154.80
coral polyp · oil treatment	16	16	84.99	122.66
coral polyp · dispersant treatment	16	16	58.53	87.43
Polyp	10	10	54.74	79.70

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.68
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.93
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.11
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.16
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.49
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.52
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.20
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.59
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.73
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	119.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.98
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.17
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.59
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.81
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.91
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.76
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	154.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	142.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	139.95
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	102.76
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.42
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.67
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	154.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	147.73
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	136.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.91
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.74
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.35
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.78
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	122.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	110.49
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	109.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	109.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.34
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.18
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.32
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.91
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.22
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.71
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.31
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	79.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	75.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	63.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	63.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	56.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	46.88
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	46.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	41.97
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	37.50
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	36.13

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.