Detailed information of KAJ7360107.1 in Desmophyllum pertusum

Genomic Location: MU827311.1:377162...389930
NR annotation: KAJ7360107.1, Cell differentiation protein RCD1 [Desmophyllum pertusum]
Species Desmophyllum pertusum · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6IP65CCR4-NOT transcription complex subunit 9 OS=Xenopus laevis OX=8355 GN=cnot9 PE=2 SV=1
Q6P819CCR4-NOT transcription complex subunit 9 OS=Xenopus tropicalis OX=8364 GN=cnot9 PE=2 SV=1
Q92600CCR4-NOT transcription complex subunit 9 OS=Homo sapiens OX=9606 GN=CNOT9 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007467 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF04078
all species →
Rcd1Cell differentiation family, Rcd1-like RepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR011989
all species →
Homologous_superfamilyArmadillo-like helicalInterproscan
IPR016024
all species →
Homologous_superfamilyArmadillo-type foldInterproscan
IPR007216
all species →
FamilyCCR4-NOT transcription complex subunit 9Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12262
all species →
UNCHARACTERIZEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000932
all species →
Cellular ComponentP-bodyInterproscan
GO:0006402
all species →
Biological ProcessmRNA catabolic processInterproscan
GO:0017148
all species →
Biological Processnegative regulation of translationInterproscan
GO:0030014
all species →
Cellular ComponentCCR4-NOT complexInterproscan
GO:0030015
all species →
Cellular ComponentCCR4-NOT core 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
K12606RCD1, CNOT9, CAF40; CCR4-NOT transcription complex subunit 9-Messenger RNA biogenesisko03019deepkoala

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 Desmophyllum pertusum 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 Desmophyllum pertusum, 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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