Detailed information of BRAKERKREP00000023804.1 in Hydra viridissima

Genomic Location: QPEY01000524.1:1765681...1766796
NR annotation: WP_066346499.1, UDP-glucose 4-epimerase GalE [Bordetella bronchialis]
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 accessionDescription
Q553X7UDP-glucose 4-epimerase OS=Dictyostelium discoideum OX=44689 GN=galE PE=1 SV=1
P55180UDP-glucose 4-epimerase OS=Bacillus subtilis (strain 168) OX=224308 GN=galE PE=1 SV=1
Q9F7D4UDP-glucose 4-epimerase OS=Yersinia pestis OX=632 GN=galE PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0004139 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF16363
all species →		GDP_Man_DehydGDP-mannose 4,6 dehydrataseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR036291
all species →		Homologous_superfamilyNAD(P)-binding domain superfamilyInterproscan
IPR005886
all species →		FamilyUDP-glucose 4-epimeraseInterproscan
IPR016040
all species →		DomainNAD(P)-binding domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR43725
all species →		UDP-GLUCOSE 4-EPIMERASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003978
all species →		Molecular FunctionUDP-glucose 4-epimerase activityInterproscan
GO:0005829
all species →		Cellular ComponentcytosolInterproscan
GO:0033499
all species →		Biological Processgalactose catabolic process via UDP-galactoseInterproscan
GO:0006012
all species →		Biological Processgalactose metabolic processInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K01784galE, GALE; UDP-glucose 4-epimeraseEC:5.1.3.2
O-Antigen nucleotide sugar biosynthesisko00541deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023804.1 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
18TPM > 0
7Conditions
68.1Max TPM
17.6Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole body 18 9 16.70 68.14
Whole 6 5 18.19 24.88
aposymbioic hydra M9 strain · aposymbioic hydra rep1 1 1 15.87 15.87
aposymbioic hydra M9 strain · aposymbioic hydra rep2 1 1 33.63 33.63
symbioic hydra M9 strain · symbioic hydra rep1 1 1 41.91 41.91
symbioic hydra M9 strain · symbioic hydra rep2 1 1 10.59 10.59
unannotated 1 0 0.00 0.00

Per sample · hover a bar for the full sample record

Show the sample table (29 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR21134059 whole body whole body not recorded not recorded SRP392977 68.14
SRR21134056 whole body whole body not recorded not recorded SRP392977 53.39
SRR21134054 whole body whole body not recorded not recorded SRP392977 42.62
SRR21134066 whole body whole body not recorded not recorded SRP392977 40.46
SRR21134055 whole body whole body not recorded not recorded SRP392977 34.49
SRR21134064 whole body whole body not recorded not recorded SRP392977 20.08
SRR21134057 whole body whole body not recorded not recorded SRP392977 18.95
SRR21134060 whole body whole body not recorded not recorded SRP392977 13.93
SRR21134050 whole body whole body not recorded not recorded SRP392977 8.54
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
SRR21134058 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 24.88
SRR10058804 Whole Whole not recorded not recorded SRP220397 23.66
SRR10058806 Whole Whole not recorded not recorded SRP220397 22.03
SRR10058807 Whole Whole not recorded not recorded SRP220397 21.14
SRR10058805 Whole Whole not recorded not recorded SRP220397 17.40
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 15.87
DRR048594 aposymbioic hydra M9 strain · aposymbioic hydra rep2 not recorded not recorded aposymbioic hydra rep2 DRP003902 33.63
DRR048595 symbioic hydra M9 strain · symbioic hydra rep1 not recorded not recorded symbioic hydra rep1 DRP003902 41.91
DRR048596 symbioic hydra M9 strain · symbioic hydra rep2 not recorded not recorded symbioic hydra rep2 DRP003902 10.59
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.

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