Gene detail

Detailed information of BRAKERKREP00000023340.1 in Hydra viridissima

Genomic Location: QPEY01000524.1:541906...543252
NR annotation: CUK05032.1, Yop proteins translocation protein U [Achromobacter sp. 2789STDY5608615]
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
P69986	Yop proteins translocation protein U OS=Yersinia pestis OX=632 GN=yscU PE=1 SV=1
P69987	Yop proteins translocation protein U OS=Yersinia pseudotuberculosis serotype I (strain IP32953) OX=273123 GN=yscU PE=1 SV=1
P96069	Secretion system apparatus protein SsaU OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 GN=ssaU PE=3 SV=1

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01312 all species →	Bac_export_2	FlhB HrpN YscU SpaS Family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029025 all species →	Homologous_superfamily	Type III secretion system substrate exporter, C-terminal	Interproscan
IPR006135 all species →	Family	Type III secretion system substrate exporter	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30531 all species →	FLAGELLAR BIOSYNTHETIC PROTEIN FLHB	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009306 all species →	Biological Process	protein secretion	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	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 BRAKERKREP00000023340.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023340.1 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

24TPM > 0

7Conditions

164.0Max TPM

38.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	14	43.36	163.99
Whole	6	6	38.69	46.94
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	30.34	30.34
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	27.74	27.74
symbioic hydra M9 strain · symbioic hydra rep1	1	1	22.05	22.05
symbioic hydra M9 strain · symbioic hydra rep2	1	1	28.95	28.95
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
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	163.99
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	122.01
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	64.35
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	63.96
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	58.56
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	52.85
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	48.48
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	41.91
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	37.07
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	32.95
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	27.78
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	23.45
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	22.31
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	20.75
SRR21134058	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
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	46.94
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	41.84
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	40.71
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	35.64
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	34.54
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	32.47
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	30.34
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	27.74
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	22.05
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	28.95
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.