Detailed information of FUN_051636-T3 in Siderastrea siderea

Genomic Location: contig_82:305686...362553
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
PF04675
all species →		DNA_ligase_A_NDNA ligase N terminusFamilyInterproscan
PF01068
all species →		DNA_ligase_A_MATP dependent DNA ligase domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR036599
all species →		Homologous_superfamilyDNA ligase, ATP-dependent, N-terminal domain superfamilyInterproscan
IPR000977
all species →		FamilyDNA ligase, ATP-dependentInterproscan
IPR044125
all species →		DomainDNA Ligase 4, adenylation domainInterproscan
IPR012340
all species →		Homologous_superfamilyNucleic acid-binding, OB-foldInterproscan
IPR012308
all species →		DomainDNA ligase, ATP-dependent, N-terminalInterproscan
IPR012310
all species →		DomainDNA ligase, ATP-dependent, centralInterproscan
IPR029710
all species →		FamilyDNA ligase 4Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR45997
all species →		DNA LIGASE 4Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003677
all species →		Molecular FunctionDNA bindingInterproscan
GO:0003910
all species →		Molecular FunctionDNA ligase (ATP) activityInterproscan
GO:0006281
all species →		Biological ProcessDNA repairInterproscan
GO:0006310
all species →		Biological ProcessDNA recombinationInterproscan
GO:0005524
all species →		Molecular FunctionATP bindingInterproscan
GO:0071897
all species →		Biological ProcessDNA biosynthetic processInterproscan
GO:0005958
all species →		Cellular ComponentDNA-dependent protein kinase-DNA ligase 4 complexInterproscan
GO:0006297
all species →		Biological Processnucleotide-excision repair, DNA gap fillingInterproscan
GO:0006303
all species →		Biological Processdouble-strand break repair via nonhomologous end joiningInterproscan
GO:0032807
all species →		Cellular ComponentDNA ligase IV complexInterproscan
GO:0051103
all species →		Biological ProcessDNA ligation involved in DNA repairInterproscan

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 FUN_051636-T3.

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_051636-T3 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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