Detailed information of FUN_058305-T2 in Siderastrea siderea

Genomic Location: contig_142:68722...75977
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00732
all species →		GMC_oxred_NGMC oxidoreductaseDomainInterproscan
PF05199
all species →		GMC_oxred_CGMC oxidoreductaseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000172
all species →		DomainGlucose-methanol-choline oxidoreductase, N-terminalInterproscan
IPR012132
all species →		FamilyGlucose-methanol-choline oxidoreductaseInterproscan
IPR036188
all species →		Homologous_superfamilyFAD/NAD(P)-binding domain superfamilyInterproscan
IPR011533
all species →		FamilyOxygen-dependent choline dehydrogenaseInterproscan
IPR007867
all species →		DomainGlucose-methanol-choline oxidoreductase, C-terminalInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11552
all species →		GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0016614
all species →		Molecular Functionoxidoreductase activity, acting on CH-OH group of donorsInterproscan
GO:0050660
all species →		Molecular Functionflavin adenine dinucleotide bindingInterproscan
GO:0008812
all species →		Molecular Functioncholine dehydrogenase activityInterproscan
GO:0019285
all species →		Biological Processglycine betaine biosynthetic process from cholineInterproscan
GO:0005743
all species →		Cellular Componentmitochondrial inner membraneInterproscan
GO:0016491
all species →		Molecular Functionoxidoreductase activityInterproscan

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
K00108betA, CHDH; choline dehydrogenaseEC:1.1.99.1
Glycine, serine and threonine metabolismko00260deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_058305-T2 across 85 RNA-seq samples of Siderastrea siderea. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

85Samples
0TPM > 0
7Conditions
0.0Max TPM
0.0Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
holobiont · low.pH_high.temp 20 0 0.00 0.00
holobiont · low.pH Control.temp 20 0 0.00 0.00
holobiont · control.pH_high.temp 20 0 0.00 0.00
holobiont · control.pH Control.temp 19 0 0.00 0.00
Whole organism 4 0 0.00 0.00
unannotated 1 0 0.00 0.00
live coral tissue/skeleton 1 0 0.00 0.00

Per sample · hover a bar for the full sample record · show / hide the sample table

Source: CnidoSite RNA-seq expression matrices (SSIDE_TPM, StringTie quantification over 85 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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