Gene detail

Detailed information of ENSVBPP00000020575.1 in Meandrina meandrites

Genomic Location: chr4:10631365...10640393
NR annotation: XP_020622022.1, recQ-mediated genome instability protein 1-like [Orbicella faveolata]
Species Meandrina meandrites · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSVBPT00000021467

atggcggctgtcCGTCGATGGCTGGAATCTCGTAATGTTTTTACGCAAAATGACTGGTTGGAAGCCTGCATAAATTTTGTGAAGGAAGACAACGAGTTATCTGCTGTTCAGTTGAACGAACTTGTGTATGAGCAATGGTTGATGGCCGAAATTCAAGATTCAAGCCTCCCTTGCCTTCCAGAAGGGCTTGAAAACAGGGATATCTGTAAACTAGAGGGACATTACAACCTTCAGATAAACTCTATCCTGAATGTTGGCGAGTCAGCTTATTCTCAAATTCAAAAGTTAAAAGGACAGGATGACCCACAAGAGCTTAACTATAAAGCAAATCCCTCAGAGCCCAAAATAAAGCCGAGTAGAATGTTGCTGCTTGAACTAACAGATGGAACACACACTGTGTTTGGAATGGAATACCAGCTGATTCCTTTTCTTAAAGTCACAACCCCTCCTGGAACCAAGATACAAGTGAGTGGCAACACAATTTGCCGACTGGGAGCCTTGCTGCTGACACCAAGTAATGTTAAAGTGTTAGGTGGAAGCATCATGCGATTGATGGAAGGAAATTCATACTGGAATATTCTACATCAAGCAATAGGACAAGATCCACCTGAGAAACCAAGGGTGATTAAAACAGAGTCTCTCAGCAGTGAAGAGccaaatgtcaatcaaatgacCATACAAAATGGAACCAGCAACATCCCTACCTACAATGACCAAAGAGCTCCGCAAGTAAAAACAGACCCTGACAAAAGAAACATTGCTGCAGGTCTTTCTAACAACAACCGCACAGGCAACACAGGAAACTATTCTGAGAACAGATGGCAATTGAAACAACAAGTTCTTGATGGAAATAGGGGAGTTAAAGTGCCTGCAAATTCCAGAAGAGATTTTAAAAGTTGTGGCGCTGATAGCAAAATAGAAAAAGACTGCAGTCAAGAACTttttgaagatgatgatgatttaTTAGCTGCAGTTGCAGATGACGATTATTTTGCACTGGAGGAAGATTTTGACATGGAACAAATAGATCAGCTTGAAATTGGTATGGAAAACACCAACAGTGCAACAGATAGACAAACAAACACTGCCAACGTAAAAACCTGTGGAAACAATGATTTTAAAATACCTTTTGACGATGAGATCTTTGAAGATGACTTTGTTGCAGAAGATCTTCTAGCAGAGGCTGCGGATTCTTTAGAGATGAAACCTTTGCATGAGAGAATCTGTAGTGAACGAACCATGAGAGCAATGCATGGGTCAAAGAAAGCAAGAACATCAAACTGTTCATCTATGGAAGTTGGAAGTCATTCAAGGAATGCAAATTCTTCAAACAATGCCAACATTCAAACACGATCAGATGTAAATCCCAGGAAAGCAAAGGATACGAGTTGTACTTTAAACAGTGTCAAAACAGAAGGTCCAATTTCTTTGATGAATAATGCCACACTTAACTCATGCAGTGTTTTCAGCAACACAGAGCCGTGTTGTAAACCCAAGAATACAGGGGCCTTGAAACTTTCGTCCAAAAAGACAAATGTTGTCACAAACTCTAGTTCATACCCAACAAGGCCATCATTTTCTCAGGCCTCCAGCATTCAGATAAAAAAAGAACCTGAAAATGAAGTCACATCTGGTCGTATGAACAATACTGTTACTCTGATGGCAAATCAGCGTCAAAGTACTCTTATACATGACACACATGGACAAGaatgcaattcagCACCCTTTGAATACCTGTCAGAGGTGTTGAAATACCATCCTGTCAGTGAAAAGCGTATTGTGAGAGTCAAGGCCTACATTGCCAACTTATTGTCTCGCCCTAATCCTGCATCATCAAAATGGAATATAACTGTGAAACTAAATGATGGAACAGCTACTGTGGATGCTGACTTGAGCGAAAAGGTTTTGATGGAGTTGTTGGAATATCCAGTTGATAAATATCAGTTTGAGATTCAAGAGGCCATGAGAAGTCGCAACCCAGCTCTGTGTCAAAGACTACACAAGAAAACGGAGCAATTTGAAAGAAATCTTGCTTCGTCGTCTGGATTGATGGATTTACAGTTCTCCCCAGACACGCCCAGACCACGTGTTCTTCGCCTGACTCAGCCAACTTCCAGGGACGCTTCTGAAATGATTCGTCGTGTTAATGCACGGTTTTAG

Transcript

ENSVBPT00000021467

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5ZHV8	RecQ-mediated genome instability protein 1 OS=Gallus gallus OX=9031 GN=RMI1 PE=2 SV=1
Q9D4G9	RecQ-mediated genome instability protein 1 OS=Mus musculus OX=10090 GN=Rmi1 PE=2 SV=1
Q9H9A7	RecQ-mediated genome instability protein 1 OS=Homo sapiens OX=9606 GN=RMI1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004229 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08585 all species →	RMI1_N_C	RMI1, N-terminal OB-fold domain	Domain	Interproscan
PF16099 all species →	RMI1_C	Recq-mediated genome instability protein 1, C-terminal OB-fold	Family	Interproscan
PF21000 all species →	RMI1_N_N	RMI1, N-terminal helical domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042470 all species →	Homologous_superfamily	RecQ mediated genome instability protein, N-terminal OB-fold domain superfamily	Interproscan
IPR013894 all species →	Domain	RecQ mediated genome instability protein 1, OB-fold domain	Interproscan
IPR032199 all species →	Domain	RecQ-mediated genome instability protein 1, C-terminal OB-fold domain	Interproscan
IPR049363 all species →	Domain	RMI1, N-terminal domain	Interproscan
IPR044881 all species →	Homologous_superfamily	RecQ-mediated genome instability protein 1, N-terminal helical domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14790 all species →	RECQ-MEDIATED GENOME INSTABILITY PROTEIN 1 RMI1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0000712 all species →	Biological Process	resolution of meiotic recombination intermediates	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0016604 all species →	Cellular Component	nuclear body	Interproscan
GO:0031422 all species →	Cellular Component	RecQ family helicase-topoisomerase III complex	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 ENSVBPP00000020575.1.

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 Meandrina meandrites 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 Meandrina meandrites, 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 →