Gene detail

Detailed information of BRAKERYMEP00000032671.1 in Astreopora myriophthalma

Genomic Location: BLFK01000951.1:166944...178909
NR annotation: CAH3122309.1, unnamed protein product [Porites lobata]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000032671

ATGTCTGGGTTTGACGAGAGACCAGTGTACTTTAGCGATGCATTTGGCTCTGAGGAGCAAAGAGATGAACGTGAAGTCAACAGGATCAGTGCAAGGAAGAGATTCAGGGAATTCATTCGCGAATTTCATGAGGGAACCTTCAGCTATCGTTACCGGGATCAACTTAAAAGACATTACAATCTAGGCCAGTACTACCTTGAAGTAAACTTGCAAGATTTGACAAGCTATGATGAGCAACTTTCAGATAAACTTACCAAGAGTCCTGCAGAATTCCTGCCTTTATTTGAAGATGCAGCTCGAGAGATGGCAGATGAAGTTACAAAGCCAAGGCCTTTGGGTGAAGAGGAGGTGCAAGACATTCAAATAACACTGAAATCAGATGAAAATGCCATGAGTGTCAGAGAGCTTAGGTCTGAGCAAATGGCCAAATTGGTGAAAATTCCAGGGATCATAATTAGCGCCTCAGCTATCCGTGCCAAGGCAACAAACATAACTATCCAGTGCCGCTCCTGCCGCAACACCATTTCCAACATTCCACTAAAGCCTGGACTGGAAGGATATGCCATGCCCCGTAAATGTCCAAGTGACCAGACTGGCCGTCCACCTTGCCCACTGGATCCCTTTTTCATCATGCCCGATAAATGCAAATGCGTGGATTTTCAAGTGCTCAAACTTCAGGAGTCTCCAGATGCAGTGCCAAATGGAGAAATGCCACGACATATGCAGCTATACTGCGACAGGTATTTGACGGAAAAGGTTGTACCTGGTAATAGAGTTACTGTGATGGGAATTTACTCAATCAAGAAAGTTGTCCAAAAGGCAGATAAGGATCGTGATGGCGTTGGTGTTGGCATAAGGAAACCATACCTCCGTGTCGTTGGCATTCAGGTGGATACAGAAGGACCTGGTCGTAGCTCTGGTGTTCCCCTGAATCCTCTTGAGGAAGAAGAATTCAATAGGTTTTCAAGTAGACCTGATGCTTATGAGACAATAGCCAAGAGTATTGCTCCATTCATTTATGGCAGTGAGGATGTCAAGAAGGCCATTGCTTCTTTGTTGTTTGGAGGGTCTCGTAAAAGACTGCCTGATGGGCTCACTCGGCGTGGGGATATCAATGTACTTCTGCTTGGTGACCCTGGAACTGCCAAGAGCCAGTTGCTGAAGTTTGTAGAGAAGGTGTCTCCAATTGGTGTATATACATCAGGTAAAGGAAGCAGTGCCGCTGGTTTGACAGCATCTGTCATGAGGGATCCTGCGTCACGCAACTTCATCATGGAGGGTGGGGCTATGGTGCTTGCTGATGGGGGTGTGGTGTGCATTGACGAATTTGATAAGATGCGCGAAGATGACCGTGTAGCTATTCATGAGGCTATGGAACAACAGACAATTTCAATTGCCAAAGCTGGAATCACAACAACGTTGAACTCAAGATGCTCAGTGCTAGCAGCTGCAAACTCTGTTTTCGGTCGCTGGGATGAAACCAAAGGAGAAGAGaatATAGACTTCATGCCAACCATATTGTCCCGTTTTGACATGATTTTCATTGTGAAGGATGAACATGAACAGAGTAAAGACATCCACCTTGCCAAGCATGTGATGCAAGTTCACTTGAATGCAGCTCAGACTGGGAAGGCTCAAGAGGGAGAACTGAGTCTGAATTTCATCAAGAAGTACATAGGCTACTGCCGCAACAAATGTGGCCCAAGGCTCTCTGAGGAAGCAGCGCAGATGCTAAAGAATCGGTATGTCCTCATGCGCAGTGGGGCCCGTGACTATGAGAAAGATGCTGAGAAAAAGATAAACATTCCCATTACTGTCAGGCAACTAGAAGCGATTATACGAATTTCTGAGTCACTAGCAAAGATGAGGTTATTGCCATTTGCAACAGTAACACATGTAGAAGAAGCACTCAGGCTGTTTCAGGTGTCAACACTAGATGCTGCTATGTCTGGAAGTCTATCAGGTGCAGAGGACTTCACTCCAGAACAGGATGTTGAGGAGGTCAGACAGATTGAAAAGCAGATTAAGAAACGATTTGCCATTGGTACTcagGTTTCTGAGCAGAGAATAACACAAGATTTTGTAAAGCAGAAATACAATGAACGTGCTATTCACACAGTAATTTATATCATGCTGAGGAGAGGTGAGCTGGAACACAGGTTCCAAAGAAAAGTGCTTTACAGAGTCAAATAA

Transcript

BRAKERYMET00000032671

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q561P5	DNA replication licensing factor mcm5 OS=Xenopus tropicalis OX=8364 GN=mcm5 PE=2 SV=1
P55862	DNA replication licensing factor mcm5-A OS=Xenopus laevis OX=8355 GN=mcm5-a PE=1 SV=2
Q6PCI7	DNA replication licensing factor mcm5-B OS=Xenopus laevis OX=8355 GN=mcm5-b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005024 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17207 all species →	MCM_OB	MCM OB domain	Domain	Interproscan
PF17855 all species →	MCM_lid	MCM AAA-lid domain	Domain	Interproscan
PF00493 all species →	MCM	MCM P-loop domain	Domain	Interproscan
PF14551 all species →	MCM_N	MCM N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031327 all species →	Family	Mini-chromosome maintenance protein	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR008048 all species →	Family	DNA replication licensing factor Mcm5	Interproscan
IPR001208 all species →	Domain	MCM domain	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR033762 all species →	Domain	MCM OB domain	Interproscan
IPR018525 all species →	Conserved_site	Mini-chromosome maintenance, conserved site	Interproscan
IPR041562 all species →	Domain	MCM, AAA-lid domain	Interproscan
IPR027925 all species →	Domain	MCM, N-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11630 all species →	DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000727 all species →	Biological Process	double-strand break repair via break-induced replication	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006270 all species →	Biological Process	DNA replication initiation	Interproscan
GO:0017116 all species →	Molecular Function	single-stranded DNA helicase activity	Interproscan
GO:0032508 all species →	Biological Process	DNA duplex unwinding	Interproscan
GO:0042555 all species →	Cellular Component	MCM complex	Interproscan
GO:0043138 all species →	Molecular Function	3'-5' DNA helicase activity	Interproscan
GO:0003688 all species →	Molecular Function	DNA replication origin binding	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	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
K02209	MCM5, CDC46; DNA replication licensing factor MCM5	EC:5.6.2.3	Chromosome and associated proteins	ko03036	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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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 →