Gene detail

Detailed information of BRAKERKREP00000024187.1 in Hydra viridissima

Genomic Location: QPEY01000530.1:357383...368742
NR annotation: XP_047127933.1, syntaxin-binding protein 5 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000024187

ATGAGAAAATTTGCTGGTATCAAGCGGGTTCTTGATAACTTAAATGGAACAACTTACAGTGATGGTTCCTTAAATCAAGATGTCAATGATAAGTTAACAGCAGATGAGTTTATTCTTGCAAAAgtaGGAAGATATGGATTACCATATCATGCTACATGCATTGCCTTGGATCATGTTCAAAAGTTACTGGCTATTGGTACTGCTACAGGTGCAATAAGAATTTGTGGAAAACCAGGTGTTGAATGTCACATGAATCATGAGTCAAATGCATCTGTCACCATTCTGTTGTTTCTTATAAATGAGGGTGGGTTAGTTAGTGTTTGCAATGATGCCAGTATGCATATATGGAGTATAAGACAGAGTAAACCTGCATTAATACAGTcattgaatttcaaaaaagaaagGATCACAGCTATCCATAATCCATTTGGATGGAAATGGCTGTATGTTGGTACTGAACGTGGAAATGTGTATATTGTAAATGTGGAAACATTTCGTGTGTCTGGTTATGTCATACAATGGAATCATGTTATTGAtgtgACTTGTAAGCAAAACCCAGGTCCAGTTGTTCAGATAAGCAGTAACCCTCAAGATGAAAATAAGctGCTGTTGACATTTGAAACTGGCATTTGTGTACTTTGGGATTTGCGCTCCAAAAAATATACACATTCCTACTCAATGGATCAGGCTACACAATACATAACCTGTGTTTGTTGGAATGGAGATGGTAAGCAGTTTATGGCAGGTCATTGGAATGGTAGCACATCTGTTTGGAACTAcaaaagtagcaaaaaaccAGAAGAGCTTCAAATGCCACATGgTCCTGGAAAATCATGCAGTACTAATGATAATGAGAAAAGCATTTGTTCTCCCATTCTTAAACTTGAATGGTATTCTGGAAAGGAAGgTGATACACctttggtaattttttctGGAGGTATGCCTGcaggaaataaaaataaaggcTTAACACTGATTCGTGGAAGATCAAAAAATCTTGTATTGTCTGAATTCATAGTTGATTATCAATGTCTTTTATCAACACCTAGAATGGCAGAACTTCCTGAACCACTTGCTTTATTTGTTCTTCTACGCAACGAGATAGTGGTATTTGATTTACAGGGACCTGCTACACCAAATCTTCCTTGGTTCCAACTTCCTTTTACATTTGATATTCACGAATCACCAATAACATGCATACAGTTTCAACCAGAATGCCCTAATGATTTATTAGCTGCTTTACACTGTATCTCAAATGCTGAAAGAGATCTTGCTGGAAGCTCTAAAAGGGTGTGGCCATTAACTGGTGGTCAAGATGGAGAAGTTTTACAGGCACCATCTCTTATAATTACAGGGCATGCCGATGGTAGCATAAAATTCTGGGATGCCACctcaaatatgCTCCTTCTCTgctttaagttaaatatatcaaatttgtttgaaCACACTGGGGTAAAAAGACAATCTAGTGGAGCTAGTACTCGAAGCAGAGCTTCAAATTCAGATTATGATGATCCATTTGCGATTCAACACATCCAGTTTAATGTGTATGACAGAATTTTAACAGTTGTATGTCAGAGTTACTTCCTTGTAACATttggtttttcaaataaagaaaactatATAGAAACTGCTaagttaGATGTAAATTTTACAGTTGAGGTTTCTCATGAATCTGAAGTTCTAACAACTGCAATGGATCAATCATTGGTACTAAATGAATCCCCTGCTCTCATTAACTCATCATCTCAAACACGTTTATCTTCAAATTCCCTACATAATGCATTGCATCCACCAGTGAAAACATCGTCTCTTAAATGGGCTCCTGGTCTGCAACCACTTTTATTCACTCAACAGATAACCAGTGAACCTATGTGTAATATAACATCAGTTGCACAATGTAGTGCATATGGATTGGTTGCATTTGGCAATACATTGGGAGTTGcaattgttgattttaaacaaaagtgtTTGGTCATTGTGGTCATGAATAATGAACTCggagTGGCAGGTGATTGGACAGATTTTACTACTCCTGCAAAAACCAGCCTTACTCAAAGTAATAGTATACCTTTATTATCTCTTGACCAAACAAATGGATTCACAGCGCAGAAGAGAAAGGAGAGAGGATCAAGAATGTTTTCTAGTGTCTCGGACACACATGCAAAGTTGAAAAGACATTCTTCTGCTAACACTCCAGTTCATGTGGGTAAAGATCAAGAAGATAGTTGTGTGATAAAAGAAACTCTTGTATCAGGATCAATTCAATCATTATGTTATACATTTAGCTACACAAAAAAGGGTGGAAATCAGGTTTTTCCAGCCTTATGGATTGGAACAAGTGTTGGTAATGTGGCATTAATAACTTTGAATATTCCACCTACTGGTGAGCAACGTTATATCCAGCCAGTAATGGCTCTTGTCACAGatactcACATGGACCATCGACATTGTGTACTAGACTTGACACATTTAGATTGTTATGGGAATATTATTAGATCGCCATTTGAACAGCATTCATCTAATTGCAGTATGGCTAGCACAGAATCAACCGAGAAGCAATATCTTTGCATTACAACAGAAAAATCTATCAAAGTATTGgttcttccattttttaaaacatatgcATCTGTGGACCCTGTTGGTGCTGATGCTTATATAGTGAAAGCAGATTCGATGCCTGTAGAAGgTGGTAACTGTTTGGGTTGTTTGACCACagatggttttttaaaactgtacaGTTTACCTAGTCTACGTCCTTTACTTGATTTGCAGTGCGGTATATCGTTAGCGGACTACAGGATGATTAAAACCTTTACGTTTGGTAAAAGTGGAGAggcaatttttttgtcttctcCTACTGAAATTCAAAgaatagtttttacaaaacataaagaAGAGAGCTTTGCGGATGACCAAGGATGTTTATTTACTATGTGCGAACTTCCTCAACCCAAACCTAAAgggttttttgaaagttttttcgGATCTACTCCATCTTCTCTTGACAGAGATGAGCTATTTGGTCCGAAAAGTGGTGCACCATCTCGTCATGTAGCCGAGCACAAGCCAGGGAGTGGTATGGAAACATTGCGTTGTCAGACTGATACTACGGCTTCTGCTGTTTCAAGGGCGCAAATGCTGCTGATAGAACGTGGGCAGAATTTGAGCCAACTAGAAGACGCCACAGCTCGTATGAATGAGCACGCTCATGGATTCTCATCGGCTGCTAAAGCTTTGGCGGATAAATATCAGCGTAAAAAATGGTACCAGCTGTAG

Transcript

BRAKERKRET00000024187

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5T5C0	Syntaxin-binding protein 5 OS=Homo sapiens OX=9606 GN=STXBP5 PE=1 SV=1
Q8K400	Syntaxin-binding protein 5 OS=Mus musculus OX=10090 GN=Stxbp5 PE=1 SV=3
Q9WU70	Syntaxin-binding protein 5 OS=Rattus norvegicus OX=10116 GN=Stxbp5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004165 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF08596 all species →	Lgl_C	Lethal giant larvae(Lgl) like, C-terminal	Repeat	Interproscan
PF08366 all species →	LLGL	LLGL2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR013905 all species →	Domain	Lethal giant larvae (Lgl)-like, C-terminal domain	Interproscan
IPR000664 all species →	Family	Lethal(2) giant larvae protein	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR013577 all species →	Domain	Lethal giant larvae homologue 2	Interproscan
IPR042855 all species →	Domain	v-SNARE, coiled-coil homology domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10241 all species →	LETHAL 2 GIANT LARVAE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0017157 all species →	Biological Process	regulation of exocytosis	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0031201 all species →	Cellular Component	SNARE complex	Interproscan
GO:0045159 all species →	Molecular Function	myosin II binding	Interproscan
GO:0050708 all species →	Biological Process	regulation of protein secretion	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
K08518	STXBP5, SRO7_77; syntaxin-binding protein 5	-	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 BRAKERKREP00000024187.1 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

7TPM > 0

7Conditions

6.2Max TPM

1.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	4	3.84	6.22
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	3.90	3.90
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	2.95	2.95
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2.45	2.45
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
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
SRR21134060	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
SRR21134064	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	6.22
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	6.18
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	5.33
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	5.30
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	3.90
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	2.95
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2.45
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.