Detailed information of FUN_012788-T1 in Siderastrea siderea

Genomic Location: contig_10:3412285...3423118
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
PF01370
all species →		EpimeraseNAD dependent epimerase/dehydratase familyFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR028614
all species →		FamilyGDP-L-fucose synthase/GDP-L-colitose synthaseInterproscan
IPR036291
all species →		Homologous_superfamilyNAD(P)-binding domain superfamilyInterproscan
IPR001509
all species →		DomainNAD-dependent epimerase/dehydrataseInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR43238
all species →		GDP-L-FUCOSE SYNTHASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0009226
all species →		Biological Processnucleotide-sugar biosynthetic processInterproscan
GO:0016491
all species →		Molecular Functionoxidoreductase activityInterproscan
GO:0050577
all species →		Molecular FunctionGDP-L-fucose synthase 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
K02377TSTA3, fcl; GDP-L-fucose synthaseEC:1.1.1.271
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 FUN_012788-T1 across 85 RNA-seq samples of Siderastrea siderea. 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
6TPM > 0
7Conditions
59.4Max TPM
3.5Mean 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 4 46.42 52.61
unannotated 1 1 59.36 59.36
live coral tissue/skeleton 1 1 53.88 53.88

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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