Gene detail

Detailed information of ENSOJPP00000017374.1 in Anthopleura xanthogrammica

Genomic Location: chr6:2340227...2343730
NR annotation: XP_001633225.1, chondroitin sulfate ABC exolyase [Nematostella vectensis]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSOJPT00000020062

ATGCTCCCGCTTATGACGAGTATCCTTCTTCCGCTCTCTCTTGAGTACTATTTGATGAACCGGGACGAGGAAGTAAAATCCCTTGCACATAACGAATGCCAGAATTTGAAATTGAATAAAGATGACCCTTCTTTCCAGATGGCAATTGCTAACATCGCTGGTAAAAATATCCTAATGAGAAAcgaatttcaaaatatggttGAACCATTCAGTAATGTTCTAAATTGTAAAAGTGGAGCAAAAGTCGAGCAGTTGATCAAAGACTTCAATAAGGACGTTCGGTTTGGAAGAATTGTACGACTTTTGAATCATGTAGAGAATGAGGGATGGGCTGCAGGCAGTGGTCTTGGATCTTTGGATCACGAGATGAATAAAGCAGGCGCGGGTTTCATGCATTCAATGTTTCTTCTCAGACACGAGCTGAGAAAAAAACCTGCCGTGTTAACAAAACTTTTAAAGACCATGAAGTGGTACAACGATTTCAACGAGATTTATCAGCAAGCAGGTCAGTACAGTTACGATGGGACCAGTGCAGATAGGATGAGGACGATTCTTTTGTACAGACTGATGATCATCCTTATACCGCCTCGACCAACTGCAACGCAGGACCAAAAGCAGAAAGTGTACGATATGAATTGTTTCAAATCTTGGTTTGAAAACACATTGAAGATCAACAAAGGCTTGGGCGGTGTAATCAAGCCCGACTACACAGGATTTCACCATATGACGTTCTTTGGTTCAGCCTACGTCCCCCAGGCACTCCACAACGCTGCCTTCGTAAAGTATCTTCTTGGTGACGGAGCCAATTTTGCATTGGGTAGCACAAGTAGTGAAAATCTTCGAAAGGCTCTGGGCGTTCTGAGAATCGTAGCAATCAAGTACTCGACCCCTAACGGAATCTGTGGGCGCTTTCCCAATTATCAGAAGAGCATCCTATCGGAACACTTCCCTGCGTACGCATACATGAGCTATATTCACCAAGAGACACCGAACTTGCACCAAGAGGACGCTGAAATATTCCTTCGCCTTTTCGATGTGAATGACCCTGCCATTGAAAAGTACCTGTCGGATGGTAGAGTCCGTTCGTCCATCTATTACTTGAGCTCCATTGGATCCATTGACATTCTCTGTAAAGTTAAATCCTTGGCAAATACCAAGGACTTTAGTGAAGAAGTTTCACCCAATGGCCACTGGAGTAAGAATTTCGCGGCTCTTTCCACACATAGGCGTGGTGACTGGAGTGTTGCTGCCAAAGGGTTCAGCAAATACACTTGGGATTTCGAGAACAGCGCGAAAGAGAACGTCTTTGGTGTATTTCAAAGTTATGGATCGTTACAGATTTCTAACAGCGAGGACGCGTTGAGGAAGTACGACGTGACCGAGGGCTGGGATTGGACAAACGTTCCTGGGGCTACAACTGTCAACATTGACCTTCTCAACATGATTACAGATAATGCGAGATATTACAGTTTAAACGGAGGTTTTGCAGGTGGAGTCAGCTTAAGGGGAAATAACGGTGTATTTGGGATGAATCTTAAGGAGCTCCCGAAGTATAAAACAAAATCCAAATCCTCTCCCCTCGCTACAATGGACTTCAGCTTCAGAAAAACGTACTTTTTCTATGATAATTTGATCGTGTGCATTGGTAATAGGATTACACTGAATTTAGTGGGAAGTGGATACCACGCGCAAACGACGCTGTTCCAAGATAAACTCTTGGATCCTGCTTATTCAAGTACAATCGACGTCGATGGTGCGACTCACGATCTACGCGTTTTGTATGAGAAAAGGAGATGGCTCCCCCCGTATCCCTCAGAAGTAACTTTGAAGGACACAAGTGGAAATACTTACTTAGTAAAGAACCCCACGCAAAGTGgactcaaaattaaaatttccgACCAAGATTCTAGAGAACGAGACGGTTGCAAGAAGACCAAGGGAAGATATGCTACTGCCTGGCTGGAGCACTCTTCCACTTACAACCACTACGAGTACGCCATTCTGATCAATGGACACAATTCAAATTTACTTCAACAGTATACCGTAAGAAATAGAGGAAGCGTTCACACGGTTGAAGTTGAtgataatgggaaaataacgGTTGGTTATTCAGTCTTTAGACGAAACCAAAGAATGCCCTCCAGAAGCCAGGGTCCGGTACAACACGTTGATAAACCTTGTTTGATCATGACTAGTGAGAAGGGAAGTCAGCTGCATTTGGCCATAAGTGACCCGTCCATCAAGTTCAAAGATGCGGTTCCATCCCCGAATCCGCTGACCTGCTCCCGAAGAAGTCTTAAGGACTTTGAAAATGGCATACCCAAGAGCAACTATTTGGACCCAACTGACTTGGGAGATGTCCGTGCGAAGTTATTGTTTTGTGTGGaggggaagaaaaataaaatcaccGTTACAGATGTAAAAGAAAAGATGTAA

Transcript

ENSOJPT00000020062

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000653 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02278 all species →	Lyase_8	Polysaccharide lyase family 8, super-sandwich domain	Family	Interproscan
PF09093 all species →	Lyase_catalyt	Lyase, catalytic	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003159 all species →	Domain	Polysaccharide lyase family 8, central domain	Interproscan
IPR008929 all species →	Homologous_superfamily	Chondroitin AC/alginate lyase	Interproscan
IPR011071 all species →	Homologous_superfamily	Polysaccharide lyase family 8-like, C-terminal	Interproscan
IPR014718 all species →	Homologous_superfamily	Glycoside hydrolase-type carbohydrate-binding	Interproscan
IPR015177 all species →	Domain	Lyase, catalytic	Interproscan
IPR011013 all species →	Homologous_superfamily	Galactose mutarotase-like domain superfamily	Interproscan
IPR039174 all species →	Family	Chondroitin sulfate ABC lyase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37322 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0016829 all species →	Molecular Function	lyase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006027 all species →	Biological Process	glycosaminoglycan catabolic process	Interproscan

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 ENSOJPP00000017374.1.

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 Anthopleura xanthogrammica 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 Anthopleura xanthogrammica, 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.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search 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 found	open →
Expression heatmap	Draw 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 / orthogroup	Look 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 analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →