Detailed information of ENSSYXP00000033588.1 in Micromussa lordhowensis

Genomic Location: chr14:17594605...17624485
NR annotation: XP_022785243.1, lysine-specific demethylase 4A-like isoform X1 [Stylophora pistillata]
Species Micromussa lordhowensis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
O75164Lysine-specific demethylase 4A OS=Homo sapiens OX=9606 GN=KDM4A PE=1 SV=2
Q8BW72Lysine-specific demethylase 4A OS=Mus musculus OX=10090 GN=Kdm4a PE=1 SV=3
Q5RD88Lysine-specific demethylase 4A OS=Pongo abelii OX=9601 GN=KDM4A PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0006134 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF18104
all species →
Tudor_2Jumonji domain-containing protein 2A Tudor domainDomainInterproscan
PF13831
all species →
PHD_2PHD-fingerFamilyInterproscan
PF13832
all species →
zf-HC5HC2H_2PHD-zinc-finger like domainDomainInterproscan
PF02375
all species →
JmjNjmjN domainFamilyInterproscan
PF02373
all species →
JmjCJmjC domain, hydroxylaseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR003349
all species →
DomainJmjN domainInterproscan
IPR040477
all species →
DomainLysine-specific demethylase 4-like, Tudor domainInterproscan
IPR034732
all species →
DomainExtended PHD (ePHD) domainInterproscan
IPR011011
all species →
Homologous_superfamilyZinc finger, FYVE/PHD-typeInterproscan
IPR003347
all species →
DomainJmjC domainInterproscan
IPR013083
all species →
Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR001965
all species →
DomainZinc finger, PHD-typeInterproscan
IPR002999
all species →
DomainTudor domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10694
all species →
LYSINE-SPECIFIC DEMETHYLASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000785
all species →
Cellular ComponentchromatinInterproscan
GO:0005634
all species →
Cellular ComponentnucleusInterproscan
GO:0006338
all species →
Biological Processchromatin remodelingInterproscan
GO:0010468
all species →
Biological Processregulation of gene expressionInterproscan
GO:0032452
all species →
Molecular Functionhistone demethylase activityInterproscan
GO:0032454
all species →
Molecular Functionhistone H3K9 demethylase 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
K06709KDM4, JMJD2, JHDM3; [histone H3]-trimethyl-L-lysine9/36 demethylaseEC:1.14.11.66
EC:1.14.11.69
Chromosome and associated proteinsko03036deepkoala

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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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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