Gene detail

Detailed information of ENSSYXP00000007334.1 in Micromussa lordhowensis

Genomic Location: chr3:17468554...17482325
NR annotation: XP_027048093.1, zinc finger RNA-binding protein-like isoform X1 [Pocillopora damicornis]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSSYXT00000007699

ATGGCCGCGAGCAACTATTACGGCTACTCTTCGGGAGGCCAACACTCCCAAGGTTTTACCCAAGCTCAAAATCCGTCGATACAAACCAGTTATGGAACACCCCAAGGAACTACTGGTTACGGAGTTCAAGCTTCTGCTCCTGCTGGGGGACACTACGTTCCGCCACAAAATCAGGCTCCGAGGCAAGTTGTTCAAGCACCATATTCTGCTGGTACAACTGCTTATGCTCAGCAAGGATCTTCCGCTCAAGGAGGTGCTTATGGCTACACGGCAAGACAGCAAGATGctccaccgccaccaccaccggCAAATGCGTCGTATCAAGCAACTCACGGTGCTTATCAAGCTCATCACGGCTCTGCTCAGTATTACGACAGAGAAGCTTACGAAACGAAGGCCTCCTACTATTCACAACAGCCGTCCTCGAATGTGCAAGGTGGACAAAGCGCTTACTACGCTCAGAACACCACTGGGGCAACCAAAGCCGCTTATCCAACCTCTGGGACAAATGTTTATCCGACTTCTGTGAGCGCGACGCCAGTGATAGCCAAAACACATCCGACCCAAGCGTACTCTTCGCAATCGTCGACTGTGGCTTACCCGTACTCGAATGCTCGCACACAAACAACCGCTTATCAAGCAAGCTCCTACAACACATCCAGTTTTGGCGGTTCCTCGACAGGGAATGCAGCAAATTATCAACCGCAAGCTTACGAAGCAGCTGTTTACAATGCCGCAGCGGCCTTTGTTCAACAACAGCATCATCAACAAGCACCACAAAGACAAGGATGGAAGAACAAGATTGGAGCCGGACAGCAAAAACAGCCTATGATGAAGCCAAAACCACCGCCTAAACAGCCTCAGCTTCATTACTGTGATGTGTGCAAGATAAGCTGTGCTGGGCCTCAGACTTACAGAGAACATTTGGAAGGTCAAAAACACAAGAAGAAGGAACAGGCTgcaaaacagaaggaaaaagAATCGCTACCTTCAAATGCTTATCGATGTGAACTCTGTGATGTCACTTGCACTGGGACAGATGCATTTGCTGCTCATCTTAAAGGGTCAAAGCATCAAAAGGTTGTAAAACTGCACCAGAAGCTTGGCAAACCCATTCCTGAGCCAACACCAATTAAACCTCCAGAACCCAAGGAGGCCATGAAAGAAAATGGGGACAAAAAACCTGGTAATGGCAACAAAGGTCCAATGAGGAAACCACCACCTAAGAAGATGGCTGCTCCAAAAATCACTTTTGTTGGTGGCACCAAACTGACTTCTACAGGACTAGTCAAGACCGATACCGGATCATCAGGGGCTGCTTCTGGAAATTCCACCACTGGCTCAGCAGCAGCGCAGGATGTTGACATGGATGAGGagAAATTTGACTTGGCAAATTATACTGGAGTGGACAAGAGCAAGATTGTCGGAGGTGAATATTTAGAGGAGATCAAGAATGATGAAGGGAAAGTTGTCAGCTTCCACTGCAAGTTGTGTGAATGCAAGTTCAATGatccaaatgccaaagaagctcATCTGGCTGGGCGACGACATCGTTTGTCATACAAGAAAAAAGTTCAACCTGATCTGGTGGTTGATGTAAAACCTGGTGGCCGTGGCCGTCTCAGCAAAATGCAAGAAGATAAGTTTCGCCGACAGTGGGAACAAGAGCAATACTGGCAGTGGAAAAAGGGAAGGCATGAGGAAGAAATACGCCGTTGGGAAGAAGAAGAGTATTACAGGAGAGTGGAAGAGGAGAGATTTTGGGAAGAGGAAAGACATCGTCGTTATGAAGCAGAGTTCTTTGAGTGGGGGGCCCCTGGCCGAATGGGACCACCAAGAGGCCCACCAGGTCCGATGGGACCACGGCCACTCATGGAAGGAGTTGGTGACATGGTGCCGCCTATGCCACGTCCCAGATATGACACCCCTGATGACCGCCTTGTGATGGCCAAACACTCGGCAATTTATCCCAATGAGCAAGAACTACAAGCAGTTCAAAAGATCGTATCTGCCTCGGAAAAAGCATTAAAACTTGTCTCTGATCTGATTGCTGAGCAAGACGTTGCTGCTCAGCCCAAGAAAGAAGGGGAAACTGTGatcaaaaaagagaaagaggagGCCAAAGATGAAGTTAAGATGGAGGTTAAGGAGTCTGATGAAGGAAGTGACGAGAAAAAAGAAGAGGATGACAAGAAGGATCCCAGCAAGCCTTCCTCGCCGCCACgtgCTCTAAAGGGTGTCATGAGAGTTGGTGTGCTTGCCAAGGGTTTACTGCTTCATGAACGCCTTGATGTTGATTTGGTTGTGTTGTGTCATGATAAACCTACGAGGACATTAATGAACAGAGTTGCTGAACTCTTGCCAGCTCACCTCACAAAAGTCACAGAGGAGAAGTATGAGATTAAGTTGGCATACGATGAAGCTGCGATAAAAATCATCACTACAACTGACCCTAAGGTGGTTGTCACAATCACCTTGACATCACCTGTCATGCGAGAGGGAGAGGAGGCAGAACATGCTGAAGACGATCCTCAAGTGCTGGACAGGCCAAAATGCTTAGCTGCATTGGCATCGCTACGACATGCTAAATGGTTTCAGGCAAAGGCAAATGGCTTACAGTCATGTGTCATCATTATACGCGTCATGCGTGATCTGTGCCAGAGGATTCCGGCATTTTCTCCTCTCAACAACTGGGCTATGGAGCTGTTGGTAGAGAAGGCACTCAGCAGCAGCCAGCAGCCTCTGGGACCCGGTGAAGCTTTCCGCCGCGTATTAGAATGCATTTCTAGTGGTCTTCTCCTAGAAGGTGGTGCAGGTTTGTGTGATCCTTGTGAAAAGGACACTGTAGATGCCTTGGGCGCAGTTTCGATGCAGGAGAGAGAAGATCTGACAGCTTCTGCACAGCATGCTCTACGACTTCAGGCTTTCCGGCAATTGCATAAAGTTCTCGGAATCGATCGGCTGCCTCCCGCATCCAAGTTCAGGCGCGGTCGCGGCAGAAGCTTCAAGAGAAGGCGCGAGGACAGTGGTCAGGGGGAGGAAGGAGCcaagaaagagaagaaagagGGGGAAGGGGAGAGTACAGGAGAGAGTATGGAAGTGTCTGCTGGAAGTGTTGCTGAGACGAAGACTGAAACCAAGACATAA

Transcript

ENSSYXT00000007699

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5REX3	Zinc finger RNA-binding protein OS=Pongo abelii OX=9601 GN=ZFR PE=2 SV=1
Q96KR1	Zinc finger RNA-binding protein OS=Homo sapiens OX=9606 GN=ZFR PE=1 SV=2
O88532	Zinc finger RNA-binding protein OS=Mus musculus OX=10090 GN=Zfr PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003064 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20965 all species →	DZF_C	DZF C-terminal domain	Domain	Interproscan
PF12874 all species →	zf-met	Zinc-finger of C2H2 type	Domain	Interproscan
PF07528 all species →	DZF_N	DZF N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006561 all species →	Domain	DZF domain	Interproscan
IPR043519 all species →	Homologous_superfamily	Nucleotidyltransferase superfamily	Interproscan
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan
IPR049402 all species →	Domain	DZF domain, C-terminal	Interproscan
IPR003604 all species →	Domain	Matrin/U1-C-like, C2H2-type zinc finger	Interproscan
IPR049401 all species →	Domain	DZF domain, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45762 all species →	ZINC FINGER RNA-BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003725 all species →	Molecular Function	double-stranded RNA binding	Interproscan
GO:0003727 all species →	Molecular Function	single-stranded RNA binding	Interproscan
GO:0071011 all species →	Cellular Component	precatalytic spliceosome	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	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
K13203	ZFR; zinc finger RNA-binding protein	-	Spliceosome	ko03041	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 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.

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 →