Detailed information of FUN_034086-T1 in Acropora pulchra

Genomic Location: ptg000024l:4700187...4702904
NR annotation: XP_015752506.1, PREDICTED: tryptophanase-like [Acropora digitifera]
Species Acropora pulchra · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q2S1V4Tryptophanase OS=Salinibacter ruber (strain DSM 13855 / M31) OX=309807 GN=tnaA PE=3 SV=1
Q0C406Tryptophanase OS=Hyphomonas neptunium (strain ATCC 15444) OX=228405 GN=tnaA PE=3 SV=1
Q8R9K5Tryptophanase OS=Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) OX=273068 GN=tnaA PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0003372 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01212
all species →		Beta_elim_lyaseBeta-eliminating lyaseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR011166
all species →		FamilyBeta-eliminating lyase familyInterproscan
IPR015422
all species →		Homologous_superfamilyPyridoxal phosphate-dependent transferase, small domainInterproscan
IPR015421
all species →		Homologous_superfamilyPyridoxal phosphate-dependent transferase, major domainInterproscan
IPR015424
all species →		Homologous_superfamilyPyridoxal phosphate-dependent transferaseInterproscan
IPR001597
all species →		DomainAromatic amino acid beta-eliminating lyase/threonine aldolaseInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR32325
all species →		BETA-ELIMINATING LYASE-LIKE PROTEIN-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0009072
all species →		Biological Processaromatic amino acid metabolic processInterproscan
GO:0016830
all species →		Molecular Functioncarbon-carbon lyase activityInterproscan
GO:0006520
all species →		Biological Processamino acid metabolic processInterproscan
GO:0016829
all species →		Molecular Functionlyase 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
K01668E4.1.99.2; tyrosine phenol-lyaseEC:4.1.99.2
Tyrosine metabolismko00350deepkoala

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

Co-expression network

Genes whose expression across the transcriptome samples of Acropora pulchra tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Acropora pulchra, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.template foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.no expression matrix–
Gene family / orthogroupLook this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.open →
Gene set analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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