Detailed information of evm.model.Ap1.4069 in Astrangia poculata

Genomic Location: Ap1:41776832...41796604
NR annotation: XP_020625116.1, pre-mRNA-splicing factor SYF1-like [Orbicella faveolata]
Species Astrangia poculata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q9DCD2Pre-mRNA-splicing factor SYF1 OS=Mus musculus OX=10090 GN=Xab2 PE=1 SV=1
Q99PK0Pre-mRNA-splicing factor SYF1 OS=Rattus norvegicus OX=10116 GN=Xab2 PE=2 SV=1
Q9HCS7Pre-mRNA-splicing factor SYF1 OS=Homo sapiens OX=9606 GN=XAB2 PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0005181 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13181
all species →		TPR_8Tetratricopeptide repeatRepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR011990
all species →		Homologous_superfamilyTetratricopeptide-like helical domain superfamilyInterproscan
IPR003107
all species →		RepeatHAT (Half-A-TPR) repeatInterproscan
IPR045075
all species →		FamilyPre-mRNA-splicing factor Syf1-likeInterproscan
IPR019734
all species →		RepeatTetratricopeptide repeatInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11246
all species →		PRE-MRNA SPLICING FACTORInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →		Molecular Functionprotein bindingInterproscan
GO:0006396
all species →		Biological ProcessRNA processingInterproscan
GO:0000349
all species →		Biological Processgeneration of catalytic spliceosome for first transesterification stepInterproscan
GO:0000398
all species →		Biological ProcessmRNA splicing, via spliceosomeInterproscan
GO:0000974
all species →		Cellular ComponentPrp19 complexInterproscan
GO:0071007
all species →		Cellular ComponentU2-type catalytic step 2 spliceosomeInterproscan
GO:0071014
all species →		Cellular Componentpost-mRNA release spliceosomal complexInterproscan

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
K12867SYF1, XAB2; pre-mRNA-splicing factor SYF1-Spliceosomeko03041deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap1.4069 across 49 RNA-seq samples of Astrangia poculata. 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.

49Samples
0TPM > 0
4Conditions
0.0Max TPM
0.0Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole organism · cold control 14 0 0.00 0.00
whole organism · heat control 12 0 0.00 0.00
whole organism · cold challenge 12 0 0.00 0.00
whole organism · heat challenge 11 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 (APOCU_TPM, StringTie quantification over 49 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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