Detailed information of FUN_034532-T1 in Siderastrea siderea

Genomic Location: contig_37:8167998...8267206
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
PF16908
all species →
VPS13_ext_choreinVacuolar sorting-associated protein 13, extended-choreinRepeatInterproscan
PF16909
all species →
VPS13_DH-likeVacuolar-sorting-associated 13 protein, DH-like domainFamilyInterproscan
PF12624
all species →
Chorein_NVPS13-like, N-terminalDomainInterproscan
PF06650
all species →
VPS13_VABVacuolar-sorting associated protein 13, adaptor binding domainDomainInterproscan
PF21679
all species →
VPS13_CIntermembrane lipid transfer protein VPS13, C-terminalDomainInterproscan
PF09333
all species →
ATG2-VPS13_CATG2/VPS13, C terminal domainDomainInterproscan
PF16910
all species →
VPS13_mid_rptVPS13, central RBG modulesRepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR031646
all species →
DomainVacuolar protein sorting-associated protein 13, extended choreinInterproscan
IPR031645
all species →
DomainVacuolar protein sorting-associated protein 13, DH-like domainInterproscan
IPR026854
all species →
DomainVacuolar protein sorting-associated protein 13-like, N-terminal domainInterproscan
IPR026847
all species →
FamilyVacuolar protein sorting-associated protein 13Interproscan
IPR009543
all species →
DomainVacuolar protein sorting-associated protein 13, VPS13 adaptor binding domainInterproscan
IPR049424
all species →
DomainIntermembrane lipid transfer protein VPS13, C-terminalInterproscan
IPR015412
all species →
DomainAtg2/VPS13, C-terminalInterproscan
IPR031642
all species →
DomainVPS13, middle RBG modulesInterproscan
IPR002999
all species →
DomainTudor domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR16166
all species →
VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS13Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0006623
all species →
Biological Processprotein targeting to vacuoleInterproscan
GO:0019898
all species →
Cellular Componentextrinsic component of membraneInterproscan
GO:0045053
all species →
Biological Processprotein retention in Golgi apparatusInterproscan

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
K19525VPS13A_C; vacuolar protein sorting-associated protein 13A/C-Membrane traffickingko04131deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_034532-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
63TPM > 0
7Conditions
85.6Max TPM
26.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
holobiont · low.pH_high.temp 20 16 28.66 68.55
holobiont · low.pH Control.temp 20 11 18.03 51.87
holobiont · control.pH_high.temp 20 16 28.15 58.41
holobiont · control.pH Control.temp 19 14 30.96 85.61
Whole organism 4 4 25.82 39.76
unannotated 1 1 18.53 18.53
live coral tissue/skeleton 1 1 25.84 25.84

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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