Gene detail

Detailed information of BRAKERKREP00000012220.1 in Hydra viridissima

Genomic Location: QPEY01000061.1:17295...19417
NR annotation: XP_012562791.1, syntaxin-5 [Hydra vulgaris]
Species Hydra viridissima · 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
Q08851	Syntaxin-5 OS=Rattus norvegicus OX=10116 GN=Stx5 PE=1 SV=2
Q8K1E0	Syntaxin-5 OS=Mus musculus OX=10090 GN=Stx5 PE=1 SV=3
Q08DB5	Syntaxin-5 OS=Bos taurus OX=9913 GN=STX5 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006991 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11416 all species →	Syntaxin-5_N	Syntaxin-5 N-terminal, Sly1p-binding domain	Family	Interproscan
PF05739 all species →	SNARE	SNARE domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR021538 all species →	Domain	Syntaxin-5, N-terminal, Sly1p-binding domain	Interproscan
IPR045242 all species →	Family	Syntaxin	Interproscan
IPR010989 all species →	Homologous_superfamily	SNARE	Interproscan
IPR000727 all species →	Domain	Target SNARE coiled-coil homology domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19957 all species →	SYNTAXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0000149 all species →	Molecular Function	SNARE binding	Interproscan
GO:0005484 all species →	Molecular Function	SNAP receptor activity	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0006906 all species →	Biological Process	vesicle fusion	Interproscan
GO:0012505 all species →	Cellular Component	endomembrane system	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0031201 all species →	Cellular Component	SNARE complex	Interproscan
GO:0048278 all species →	Biological Process	vesicle docking	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	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
K08490	STX5; syntaxin 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 BRAKERKREP00000012220.1 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

20.3Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	4	1.52	11.65
Whole	6	6	12.50	20.35
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	9.31	9.31
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	6.48	6.48
symbioic hydra M9 strain · symbioic hydra rep1	1	1	7.07	7.07
symbioic hydra M9 strain · symbioic hydra rep2	1	1	8.45	8.45
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
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	11.65
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	7.78
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	7.72
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.15
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
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
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	20.35
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	12.82
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	12.59
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	12.44
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	11.50
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	5.34
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	9.31
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	6.48
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	7.07
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	8.45
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.