Gene detail

Detailed information of BRAKERKREP00000001199.1 in Hydra viridissima

Genomic Location: QPEY01000003.1:2379574...2404357
NR annotation: XP_047126257.1, rho GTPase-activating protein 26 isoform X2 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000001199

ATGGGTCTCAAGCCTCTTGAATTTAGTGAGTGTCTGTTGGATACACCTTATTTTCGTGACAGCATATATGACCATGAAAAAGAGCTTGATCAAACCAACGATGCAATAAAGTCTCTCATCAAAGAATgcagaaatttaattaaagcgTTGGACAaaGATGCATTCCCAGCTTTTGCTGAAATTATTGAAAGGGTTGAAGAGGAAAGAAGAAGAATGttGGACCATGCAAATTCTCAATTAATTGATCAATTAGAGAAATTTCGCAAAGAACAAATTGGAAATGCAAAAgaagaaaaaaagaagtttgatAGAGAGTCAGATAGAGTATGTGGTTTACTGGATGCtcatttgaaaatatctcctaaaaaaaaagatattgttttgACTGAGgCTGATGCTCAACTCGAGCACGAACTAGCAAACTTTCGACAGACATCTTTGGCTTATGTTTCAAAACTGCAAGAagtgaatgaaaaaaagaagtttgagTTTGTTGAAATTATGCTTGCTTTTATGTATGGACAGTctactttttttcataatggtcatgaagtttttaatgacAACAAAGATTATTTAACTGATCTGCAATACAAACTGCAAActACAAGATATAGATTTGAAGTTACAAGACAAGAAGCAGAAgagcttaaaaacaaaacaacaaagAGATTCAATCTCGGAGAACTTCATAAAGGCTCCTACTCTAGACAAGGATATCTATTtgtacaagtaaaaaactggGGTGGCCTGGGGGGCCAGTGGGTAAAGCATTACTGCAGATactcaaaagaaaacaaaataatgtcCATGATTCCATATACCCAAACATCAGGGAAGTTGaaCAGTAACACAGATACATTTGTTGTCACTTCATGTACCAGgaaagCTACAGAGTTATCAGAACGaaggtttttgtttgaaataactGGTCAAGATAgAAACCAGCCTATCACAATTCAGTGCTCCTCTGAAGATGATAGAAAACAATGGCTTGAAGTTATGGAAGGAAAAGAACCaCTCTATCAAGattcttttgatttaattcaaaatgaGGgagcaACAAGTATAAATGATACCggagttcaattttttttgaaatgtgttGAGGCTATTGAATCTagagGCCTTGGTGATCAAGGGATATACAGGATAGCTGgtgtttcatcaaaatttaataaactattGCAAATTGGACTGGATCAAAAGCAGTTAGAAAAGTTGGACTTACTATCAGAAAACTCATCATGGGAAGTAAAAACTATTACAAGTGCTATGAAGCAATACTTTAGGAATTTATCTCCACCTATGCTGACATACAAACTTCACAGTGCTTTCCTTGCTGCTGTTAagcTGGAGActgaagaaaagaaagttgatGCATTGAAAGATCTGTTGACTCAGCTACCCGAAAGACATAATATTATACTTAATAGACTTTTGTACCATCTAAAAATCGTAGCTGAGCATGCTGATTTCAATTTAATGCAAGCAAGTAATCTAGGTGTTGTGTTAGGACCAACATTAATGCGTCCTAAGGAAGAAACAATGGCTGCAATAATGAATATTAAATATCAGAGTGTTGTAGTTGAaacaatgattaaaaattatgataagCTGTATCCAAATGGTCCACCATTTGAtgcaaaaatagttaaatctCCAAGTCAAGTTTCTTTATCAAGTAACTCAAGTCATGTTCCTTCTTCACCAGTTGAACCTTCCAGAATCACTTTTCCAGCTAAATATAGAGCACCTGATCCTCCACCTGTTAGTCGACCAATTATACGTCCTAGGGCTTCCAGAAATTCtgattcATCACAAATAGTGCAAGAAGTATCAAGTTCTACAGAGCCAACATCACCCTTATACAGCGCTCTTTATTCtgctaaacaaaatttagatcCACCTGTAATGCATCGAAGATCTTCTAATAACTCTTCTAATGACATCAAATCAGcaaCGACTTCAAGAGGTTCAACAGGAAATGTTAGgtttGCAGAAGCGGTTACACCATTTACAAGTCCAACTACTAATATCACTGAAATAGAcAATCCAACAAATACTAACTTCAAAAGTAACTCAGAATTTGGATCAGAAGTTAATGAGTTAGTGGCATCTTCTGAGGaggttttaaaagaaaatcaacgTGTTAGATTTAAATCATATGACTCTAATCTTCCACCCATTATACCTAGAAAGAAAGAATGGAAAGTTCGCACAAAGTACACTTGTGTAGCAGAGAACAGTGCTGAGCTAACATTCAATGCTGGTGCAATCATTACAAACGGTATTTCATTCTGA

Transcript

BRAKERKRET00000001199

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B5DFQ4	Rho GTPase-activating protein 26 OS=Xenopus tropicalis OX=8364 GN=arhgap26 PE=2 SV=1
Q6Y5D8	Rho GTPase-activating protein 10 OS=Mus musculus OX=10090 GN=Arhgap10 PE=1 SV=2
Q5ZMW5	Rho GTPase-activating protein 26 OS=Gallus gallus OX=9031 GN=ARHGAP26 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002561 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16746 all species →	BAR_3	BAR domain of APPL family	Domain	Interproscan
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan
IPR004148 all species →	Domain	BAR domain	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR047234 all species →	Family	GRAF family	Interproscan
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR047225 all species →	Domain	GRAF, PH domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12552 all species →	OLIGOPHRENIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	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
K20071	ARHGAP26, GRAF; Rho GTPase-activating protein 26	-	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 BRAKERKREP00000001199.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

9TPM > 0

7Conditions

12.4Max TPM

2.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	1.18	12.37
Whole	6	4	7.03	11.59
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	8.50	8.50
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	6.14	6.14
symbioic hydra M9 strain · symbioic hydra rep1	1	1	3.86	3.86
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	12.37
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	8.95
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	11.59
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	10.41
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	10.36
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	9.83
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	8.50
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	6.14
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	3.86
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.