Gene detail

Detailed information of ENSOJPP00000005384.1 in Anthopleura xanthogrammica

Genomic Location: chr8:13348232...13356206
NR annotation: XP_031568999.1, uncharacterized protein LOC116303574 [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSOJPT00000006211

CAAAAAAAACCAAGATGGACGACAGACATGCGAAGagaatacaaaatattttttcgcaTTTAGTAAGAATCTCCCCCGAAAATCATGACACTGGACTACAGGAGATCTTAGATAAGGGGGCAGTAGAACTTTCTGAAGCACCACCTAACATGGACAAGGAGTACCAGACACTTCTTACTCCACAGGCAGTCCAATTTGTGGCAGAGATGGTTAAAAAATTTGATCCCCAAGTTTCAGagATTCTTAGGAAGCGTCAGCTAAAAAAGCTTCACTTCCAACAGACCAACTTCTTGCCAGATTTCTTAAAGAAAAGCAGTGCCCATCAGTTCTGGAGGATAAGAGAAATCCCTAAACGTCTACAAGACAGGCGGATAGATCTTGGGGATATCACTCCTGCCAATACAGGACTTTTTAAGCGCGCACTTAATTCATCTGCTTGTGGAATACAGACAGACCTTGATGATGGACATTGTCCTACATGGGCCAATCAGCTGAAAGGACTTTTTAATGTGTACACGTTTGTACATGGAAGCATGACAGaTGTACCGCCGATGTCTTCTGCTCCTCTTGTGATATTGAGACCTCGAGCCTGGAACATGTTGGAAAATAACATGATGGTTGAAGGCAAGGTTATTCCAGGTGCCTTGTTTGATTTTGGTTTGCATATCTTCCATAATGGAAAGAAAATGTTTGAGCATGGAGATGGGCCATTTTTATATCTTCCCAAGCTTGAAAGTCACCTTGAAGTAAGATTGTGGGATGACATATTTTCCTGGGCTGAAAGTCGTGTTGGTTTACCCCTGGGAAGCATCAAGGCTTGTGTTCTGATTGAGAGCATTCTCAGCTCCTTTGAGCTGGAGCAGGTTCTCTTTGAGCTCAGGGATCATTGCGCTGGTATTAATTGTGGAATGTGGGATTATTCAGCCTCTTTTGTCAGTACCTTTGgTCATCGTAAAGATTTTATTCTTGCCGATCGCAAGAAGTATGTCTCAATGGATAAAAAGTACCTCAAGAGTTATTTGGAACTGGTCATTAAGactTGTCATGCACATGGCTGTCATGCTACTGGCGGCATGGTACCATCAGTACTCCCTAAAGATGACACTGCAAAATCCCAACAGATTGTGCAAAATGTTTGCAGagcCAAATTAAAAGAGATCCAAGCAGGAGCTGATGGTTTTTTGGTGTTTGATCCTGACCTGATCAAACCATTACTCCAAGTCTGGAGACAGAATGTTCCAACAGAGAACCAGCTTCATGTGTTAAGACAAGACGTTCAAGTTAATGACACTGACCTCTTGACACTGCCACAGgGTGGTTTCACACTAGATGGTCTAAGAAATAATATCACCGTGGGTATCTTGTTTATTCAAGCCTGGCTTAGAGGTGTCGGCAGCTTTGTTTTGAATGGTGCAGTTGAAGACTCTGCAACGGCTGAAATTTCAAGATCACAGATCTGGCAAGCTATTCGTCACCAGTGTATCTTAGAGAATGATGGCCGTAAAATCACAAGGGCATTAGTGAAGAATGAAATAGCAATGATTACAGACCAACTAATAAAGACTCGGTCTAAGTCATCATCTGATGAACAACAACTGACCATCTCTGCCCAGTTATTAGAAGAGCTGATACTTGCCAGAGATTTCCCACAGTTTATTACCACATATCTGTATGAACAtcatgtttttattcatagTAAATAGCACTGACATGAACCAAGAGTAAATGATTCCAAATTGTATGTTTAAATTCAGTGAATTCCTTTCatttaaattaatataataatagcTAGGATAACTAAATTAAAGGCCTTTTTCAGCTTACAGTCACATGCTGTTATATCACCTTTGTGATAAATGAATTCCGGTGGATTACAGTGCGTTTCACAATTCTGCGACCTAACCAACTGAAGGTGTCTGGCATTTTGacttctgtcaatcaagctTACAACCAAGTTCATTCCAATCTAGTGAGAAGGAATTCCTGTGAAAACTTCAAGGAACTtgtagtttgattgatggaatcAAGAatgccagacgtctggagtcgtTAGGTCGCAGAATAATGAACATCACTGTGAGTGAATGCTTTTAAGCAAAAGGCCTATTCTTCCATTTCCCACTTCATATACAGTCAATAAAGTCCTTCCTTTAAACAAGGattgaagaaataaaataagtgACAAAGTCAAATTAATCAAGTTCTGTAACTTATCTAATAAGTGAGCTCATTTTAAAATGCTCCAGTAAATGTATCCCTGAAAAATTCTTAAAGTATAATGGGGTcagaaatttataatttaatgagatttcccatttttttcctgcaAGGCGAATAATATATGGATCTAACAATAAAGCTATTCAGATTTCGGCTGATATAAATTTACTTGACGTGTGATTTCCATTTTATACGATGGTCATAAAACTAATACTAAATACTTCTGTAAGTAgttaaaaatccttttttcattGTCTGTTCTCTTAATCATGATTGACACCAAAAAGCAAAAACTTTGCGGTAAATGGTCTTTACTTGCCTTTATACTTGATGtttgaatatttcaaaattatttaagaGTACCGACTTGTAATTGAGAATTGTATACAATAGCCCATTTGCAATATTTTGGTTGAGCTATCACTAAAAACTTGGACAGAAGCAAAGCTTTTTTCCttgtgtaatgtttttccatttcagac

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P28345	Malate synthase, glyoxysomal OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) OX=367110 GN=acu-9 PE=3 SV=2
P95329	Malate synthase OS=Myxococcus xanthus (strain DK1622) OX=246197 GN=mls PE=3 SV=2
P28344	Malate synthase, glyoxysomal OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=acuE PE=3 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002053 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20656 all species →	MS_N	Malate synthase, N-terminal domain	Domain	Interproscan
PF01274 all species →	MS_TIM-barrel	Malate synthase, TIM barrel domain	Domain	Interproscan
PF20659 all species →	MS_C	Malate synthase, C-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR048356 all species →	Domain	Malate synthase, N-terminal domain	Interproscan
IPR011076 all species →	Homologous_superfamily	Malate synthase superfamily	Interproscan
IPR001465 all species →	Domain	Malate synthase, TIM barrel domain	Interproscan
IPR046363 all species →	Homologous_superfamily	Malate synthase, N-terminal and TIM-barrel domains	Interproscan
IPR044856 all species →	Homologous_superfamily	Malate synthase, C-terminal superfamily	Interproscan
IPR006252 all species →	Family	Malate synthase A	Interproscan
IPR048355 all species →	Domain	Malate synthase, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42902 all species →	MALATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004474 all species →	Molecular Function	malate synthase activity	Interproscan
GO:0006097 all species →	Biological Process	glyoxylate cycle	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01638	aceB, glcB; malate synthase	EC:2.3.3.9	Glyoxylate and dicarboxylate metabolism	ko00630	deepkoala

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 →