Gene detail

Detailed information of BRAKERKREP00000018564.1 in Hydra viridissima

Genomic Location: QPEY01000145.1:355531...369123
NR annotation: XP_047137005.1, uncharacterized protein LOC101235467 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000018564

ATGCTGTCAAAgtttatacaaaagaaaaatattttgaggcGCTACATTAGCCACTTGTATTATCAGCATGGGATGTTTTGTTCCCAACATCCAATTCTTATGTTGGTTTGCAGTATTACTGTTGTTATTGTTTGTAGcttgCCCCTTACAAGTTTCCCCTTATTTGAGAAGATACTGGCATTTCTATTTCAAAGAGTTATAGTGAACTACAAAACACATGTAACAGCTATGAGTTCTCAAGATTCAACTGAAAATTTTctagatgttaaaaaaagtaattttGCATATGTCCAACAAATTAACTTCAAAATCACAATATCTGGAGAAACAAATTTGACAAGGGAGCAGCTTATCCAAAGCACTATGCAGTTGCCATTATTAAAGCAGTTGGATGAGCAACTTAGACAACCAGCTTCAACTGACGATTGGAGTATTTCTTGCTTGAAACTTCACAGAGATGCACCATCTATGATGTCACTGAGaaaaagaattacattttCCTATGGACGATTTCACAATGATCTTAAGCGTAAAAAATTCTACAATATGAAATGCTTATTCATATCTCCTAGTATGGCCACagacagCAATACTACAAATTTTAGTGAACTTTCTGTGTCTTTCAAagAGCTATTATTTGGCCATCTAACAAAAGAGGAAGATCCTATCAAAGTTTTCTTCATTACTCTTAcattgtttttgaaagaagaaaGTAATAGGCTTCGTGAACAAATCATAtctggtttcaaaaaaaagaatattagtGTTGAAATTGGTGTGGAACCTTTATATAAGATAGAGTATGAGTTCTCAGATGAGTCTGGCCCATCTGAACTAATTCCATTGACTATTGCCTACACTGTTGTATTTTTCTACTTATGGTTTTCAatggCAAAAGTTGAACTTCTTCGAACTCGTTGGGGACTTGCATTTTCTGCAGTAATGAACTTTTTGTTGTCTTTTAATATGGCGATTGGCATTTGTGCCATGTTGGATGCTCTTCCTACAACATTAAATGTTGGCCAGATTTTTCCATATGTCGTCATCCTTATTggcattgaaaatttttggattATCACAAAGTCAGTTATGAGTACTAAAAAAGATATCGAAGTTAAATACAGAATAGCTTTAGGTTTAGGTATGGAGGGCTGGTATatcacaaaaaatcttttggttGAAATATCACTACTTTTTATTGGGTACACATCAGGAATTGGTGGTATGCAGGAGTTCTCTGTGTTTGCTCTGGCTTGTTATCTGTCagatttctttttgcaattaaCTTTCTTTGTTCCAATACTTGCTGTAGATGCAAGAAGAGCTGAGgTTGGTTTACCCTTTACAGACAGTTCCGCCTGGAAGTATGCATTTTGTATTGATATTGAGAGGCCTGGTGCCACTAAAAACCATTCTGAAATACTGAAAGATCGGTTTTCTGCAGCtcttaaattaagttttggtGTTGCTCGGTACAGGGTTCTTCAAAGATCCATAATGatcttgattttaatttatttcctACTGACAGTATCTTATCCATATCATAgtatatttcaaacaaagcATAATTGGAATGTAAATgtctcaaataaaatttcttgtttgGCAGAAGGTCAAAACACTTCTCAAATAAACGCAACATCATCATGGTTATACTTGTGCAGTAAACACTGGCCCGAattgtttaattattattttgtccaCTTGAATGGCAGtctgCGTTTTGTAGCAGCACATGAAAATGGTATTGTGGAGTTTTATCATGTTAAAGCGAAACATCCTGGACATAAGAGAACAAATTCTTTGCCAGACCCGCAGCTAACGTCTTTTTCGTTAGAGGTTTCAAGAACTGTTTCTGTCTTCaatcaacaaattgtttttatgcaaattgcaatacataaaatatttgtttcttcAGCTCGTGGTCAAGTTAAGGTGTTGAGAGCGAGTGATGATGGTGGTATACCTATGCATTCAAATATGATTGGCGATCAACAGATCACAGCAATGAAAGTAGAGATGAGTCCAGAAGCTGTCATTATTGGCACTAATATTGgtaacatttacattttaaactctGTTGGTCAAACAGTTAAGCATTTATGCAGCGGAGGTTGTGAAGTAATGTCGATTTGCTCTGATGATAATTATATTGGAGCGTTGACTTTCGATGTGGTTCTCACTGTTTGGCTCAAAGAGGGTTACATAAAGTGGTGGCAAGTGAATTTgTTGTCATACGGAGGAGCTTTCGAAATACTTTCTATGGCCAGATATTCATTGGCAGTTATTACCCAGGATACTGTCATTGTATTAAATGTAATGTCAAGAAACATCGTTAGTTCATTTGAGTATGCAGAGCCAACAGCTGGAATACTTATGATCCCACCttttgtttgtcaaaataaaagttcgatTGTTCTACCCTGTGGAAGCTACGTCATGCATCTTCAGTTTCCGAATTTAATCGAACGCGATCGTTGA

Transcript

BRAKERKRET00000018564

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0JPH4	Sterol regulatory element-binding protein cleavage-activating protein OS=Xenopus laevis OX=8355 GN=scap PE=2 SV=1
Q5MNU5	Sterol regulatory element-binding protein cleavage-activating protein OS=Sus scrofa OX=9823 GN=SCAP PE=2 SV=2
A2RRU4	Sterol regulatory element-binding protein cleavage-activating protein OS=Rattus norvegicus OX=10116 GN=Scap PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004100 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12349 all species →	Sterol-sensing	Sterol-sensing domain of SREBP cleavage-activation	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR030225 all species →	Family	Sterol regulatory element-binding protein cleavage-activating protein	Interproscan
IPR000731 all species →	Domain	Sterol-sensing domain	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46378 all species →	STEROL REGULATORY ELEMENT-BINDING PROTEIN CLEAVAGE-ACTIVATING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0032933 all species →	Biological Process	SREBP signaling pathway	Interproscan
GO:0032934 all species →	Molecular Function	sterol binding	Interproscan
GO:0032936 all species →	Cellular Component	SREBP-SCAP complex	Interproscan
GO:0045540 all species →	Biological Process	regulation of cholesterol biosynthetic process	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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 BRAKERKREP00000018564.1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000018564.1 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

11TPM > 0

7Conditions

19.7Max TPM

3.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	0.83	9.21
Whole	6	5	13.00	19.65
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	5.96	5.96
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	4.72	4.72
symbioic hydra M9 strain · symbioic hydra rep1	1	1	3.53	3.53
symbioic hydra M9 strain · symbioic hydra rep2	1	1	0.08	0.08
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
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	9.21
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	5.69
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
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	19.65
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	18.67
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	16.79
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	16.39
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	6.49
SRR10058802	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	5.96
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	4.72
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	3.53
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.08
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.