Gene detail

Detailed information of BRAKERKREP00000001751.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047136789.1, GATOR complex protein WDR24 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000001751

atggCCCGTAACCAAGATAAGTTAGGTCTTCAGCCTCTTAATGCTGTTACCTTTCAACAAACCTTGTCATGTTCAGCAAAAGccatatgtaaaaataaagaaggAACGCAGTGCGCTGTTGGTGGCAGTAACTTGTTAAAGATTTTCAGTATTGAAGAAAAGAGGTTTGTGGAAAAATTGAATCTTGTAGCAGGTCCACGCAAGTTGAATTACAGCATATCTGATTTGCAATGGCACCCAACTGAAGataacaTCATAGCATCTGCTGCTGGTAATGGTGTTGTCATTCTTTGGGATTTGAACAAGGAGCAAAAGCAAGATCATATATTCCAACAGCACTTCCGCtttgtcaataaaatttgttttcatccAACTGATCCAACTCTACTTATGAGCTGCTCACAAGATGGGAATATGAACtgctttGATATACGGCGTAAAGATGTTTCTATAGCATTTTGTGGTAAAGCTGATAGTATCAGGGATGTTCAGtttcatcGAGTAGacaagtttatattttgtgcAGCTGGTGAAAGTGGAAATATCCAgCTTTGGGATATGCGAAAGCCTGAGCATCATTATACACAGTTCACTGGTCATGCAGGGCCAGTTTTTGCATTAGATTGGCATTTGGAAGAAAGATATTGGCTTGCAACTGGTGGAAGAGACAGTTTAATAAAGATCTGGGACACACAATATAATAATTCTCCAATCAATACAATTGAAACTATTGCATCAGTTGCAAGAATTAAATGGAGACCAAACTATAAACATCATATTGCAAgTTGTGCTCTAATATTGGATAACAGTGTAAATATTTGGGATATTCGAAGACCGTATGTTCCTTTTGCAGCTTTTCAGGAACACAAAGATGTTGCAACTGGTTTTGTTTGGCAGCGTGACCCTGATATTATGCTATCATGttcaaaagataaaactaTAATTCATCATACCATTCGTGATGCTGAAAGACCTGCCACAAAAGCTCCTTCAATTGCACTTGGATTATCTCCACATGGTCTTATTGGTCATGCTTTTCCTAATACAGACATTAAGCAAGACACGCCAAAGCCAAGTCAATATCCAGTTAAAAAGCAAGCAAAGACTGGTATTGAAAATCAGGAATTTCGTCAAGAGAGTAGTGCAGTCAACATATATAAAGTTGATTCTTTATTTGAAGAGACATGGATTGCTTCTCTTGCAaaagaatacattttttttggcaaatcaATTACCTCAATGTGTGAGCACAATGCAGAGGCAGccaaaaagttaagtttttttgataaagcaCAAACTTGGGCCATTCTTGGTCAATTATACTATACAAGCTCTAAAAGTGAACAAACAGATAAAGCACCAAGTAGTCCACCAATCTTAATTACTTCATATGTTAATCAAATGGTTGGAAGAGATAATCTTTCGAGGTTGTTAGAAACTCCTGaaggcATTGTTGATTCAAGAAGTATTAACCAATCAGCATTAAGCTCTGAGAATGAGACAGATCCAGGCCTTCAAACACCCAGTGGGATTGTGTCAAATACCTATAATGATATGACTTTAGTAGGACCAGAGCTAGATGCAGTATTTGGAGATGAAGACTGTAATGAGCAACTTTTTTCTGCTGATGTTGATGTTGATGTAGAAGATATTGAAAATCTACCCAGGGAAGGATTTGAACTTCGTCGATCTTTTAGCAGTAGACCATTCCAGCAAATTGAAGATATGGAGGATGAGGAAGAGCAAAAAGATGAACTCCAACAACTGCAACCAATTTCTTTGGGTGACATACAGATGTGTGTTACTGTGCTGTTAGTGTTGGACAGTTTTGTAAAAGAGCTAATTGAAAAGAGTGTGCAAGAAGATTGGTTCAATGGTTATATAGaAATCTTATCTCGACTGCAGTTGTTTAATATTGCGAGTGAGGTGATAAACCATGCTCCAGTTCCTGTTAACTCTTTAAACCAGaattcAACTGTCATACATATGCAGTGCGGTATTTGCTATAAGGTTTTAAGCAGCACATCGCACGGCTGGTATTgtagaaattgtaaaaaaagtgctCAGATTTGTGCAATATGtcaCATCCCCGTGAAGGGGCTATACGCATGGTGTCAAGGGTGTGGACATGGTGGACATTTGAGTCATATTAAAACTTGGTTTAGTGAACAAAAATTCTGTCCCATTGGTTGCGGTCACAAGTGTGAGTATTCGTAA

Transcript

BRAKERKRET00000001751

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7ZX22	GATOR2 complex protein WDR24 OS=Xenopus laevis OX=8355 GN=wdr24 PE=2 SV=1
Q8CFJ9	GATOR2 complex protein WDR24 OS=Mus musculus OX=10090 GN=Wdr24 PE=1 SV=1
Q96S15	GATOR2 complex protein WDR24 OS=Homo sapiens OX=9606 GN=WDR24 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005529 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF17120 all species →	zf-RING_16	RING/Ubox like zinc-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR037590 all species →	Family	GATOR2 complex protein WDR24	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR049566 all species →	Domain	WDR59/RTC1-like, RING zinc finger domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46200 all species →	GATOR COMPLEX PROTEIN WDR24	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005774 all species →	Cellular Component	vacuolar membrane	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016239 all species →	Biological Process	positive regulation of macroautophagy	Interproscan
GO:0032008 all species →	Biological Process	positive regulation of TOR signaling	Interproscan
GO:0034198 all species →	Biological Process	cellular response to amino acid starvation	Interproscan
GO:0061700 all species →	Cellular Component	GATOR2 complex	Interproscan
GO:1904263 all species →	Biological Process	positive regulation of TORC1 signaling	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
K20408	WDR24, SEA2; SEA/GATOR complex protein SEA2/WDR24	-	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 BRAKERKREP00000001751.1 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

14TPM > 0

7Conditions

29.7Max TPM

6.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	4	4.34	29.69
Whole	6	6	12.45	15.86
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	13.29	13.29
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	14.15	14.15
symbioic hydra M9 strain · symbioic hydra rep1	1	1	12.20	12.20
symbioic hydra M9 strain · symbioic hydra rep2	1	1	3.08	3.08
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
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	29.69
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	21.52
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	20.52
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	6.43
SRR21134050	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
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
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	15.86
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	15.63
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	14.72
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	13.94
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	13.13
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	1.42
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	13.29
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	14.15
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	12.20
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	3.08
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.