Gene detail

Detailed information of BRAKERKREP00000001174.1 in Hydra viridissima

Genomic Location: QPEY01000003.1:2990727...2994070
NR annotation: XP_002156778.1, GTP-binding protein SAR1b [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
Q9CQC9	Small COPII coat GTPase SAR1B OS=Mus musculus OX=10090 GN=Sar1b PE=1 SV=1
Q5HZY2	Small COPII coat GTPase SAR1B OS=Rattus norvegicus OX=10116 GN=Sar1b PE=2 SV=1
Q9QVY3	Small COPII coat GTPase SAR1B OS=Cricetulus griseus OX=10029 GN=SAR1B PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006644 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00025 all species →	Arf	ADP-ribosylation factor family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan
IPR006689 all species →	Family	Small GTPase superfamily, ARF/SAR type	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR006687 all species →	Family	Small GTPase superfamily, SAR1-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45684 all species →	RE74312P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0003400 all species →	Biological Process	regulation of COPII vesicle coating	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:0016050 all species →	Biological Process	vesicle organization	Interproscan
GO:0030127 all species →	Cellular Component	COPII vesicle coat	Interproscan
GO:0061024 all species →	Biological Process	membrane organization	Interproscan
GO:0070863 all species →	Biological Process	positive regulation of protein exit from endoplasmic reticulum	Interproscan
GO:0070971 all species →	Cellular Component	endoplasmic reticulum exit site	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
K07953	SAR1; GTP-binding protein SAR1	EC:3.6.5.-	GTP-binding proteins	ko04031	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001174.1 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

17TPM > 0

7Conditions

10.3Max TPM

2.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	8	1.86	10.29
Whole	6	6	4.43	5.83
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	3.62	3.62
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	3.79	3.79
symbioic hydra M9 strain · symbioic hydra rep1	1	1	1.82	1.82
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
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	10.29
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	7.15
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	6.36
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	5.03
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	3.76
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.76
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	0.14
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.06
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	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
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	5.83
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	5.23
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	5.22
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	5.13
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	4.64
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.53
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	3.62
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	3.79
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	1.82
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.