Gene detail

Detailed information of OS493_032728-T1 in Lophelia pertusa

Genomic Location: scaffold_247:520783...530326
NR annotation: KAJ7389260.1, Signal-induced proliferation-associated 1-like 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
Q80TE4	Signal-induced proliferation-associated 1-like protein 2 OS=Mus musculus OX=10090 GN=Sipa1l2 PE=1 SV=3
Q5JCS6	Signal-induced proliferation-associated 1-like protein 2 OS=Rattus norvegicus OX=10116 GN=Sipa1l2 PE=1 SV=1
Q9P2F8	Signal-induced proliferation-associated 1-like protein 2 OS=Homo sapiens OX=9606 GN=SIPA1L2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002250 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21022 all species →	Rap-GAP_dimer	Rap/Ran-GAP protein dimerization domain	Domain	Interproscan
PF02145 all species →	Rap_GAP	Rap/ran-GAP	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035974 all species →	Homologous_superfamily	Rap/Ran-GAP superfamily	Interproscan
IPR000331 all species →	Domain	Rap/Ran-GAP domain	Interproscan
IPR050989 all species →	Family	Rap1/Ran GTPase-activating	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15711 all species →	RAP GTPASE-ACTIVATING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0051056 all species →	Biological Process	regulation of small GTPase mediated signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0090630 all species →	Biological Process	activation of GTPase 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_032728-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_032728-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

108TPM > 0

7Conditions

82.0Max TPM

15.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.89	14.49
polyp at pH7 6	18	18	9.48	17.22
coral polyp · control treatment	16	16	15.85	39.50
coral polyp · oil and dispersant treatment	16	16	26.05	48.99
coral polyp · oil treatment	16	16	12.98	24.47
coral polyp · dispersant treatment	16	16	28.72	81.95
Polyp	10	8	1.89	4.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.55
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.64
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.92
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.22
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.57
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.10
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.11
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.09
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.11
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.55
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.52
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.52
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.59
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.60
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.27
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.33
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.70
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.69
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.09
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.95
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.49
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.08
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.13
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.87
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.