Gene detail

Detailed information of BRAKERNUSP00000011309.1 in Montipora cactus

Genomic Location: BLFO01001011.1:624872...647360
NR annotation: XP_029186161.2, peroxisome biogenesis factor 1-like isoform X1 [Acropora millepora]
Species Montipora cactus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERNUST00000011309

ATGCAATGGCAGGTCATTGTTGAACCAGTTGTTGGTATTCCATCCTGTAACCGGATTTGTGTGGATCCTGTAAGCATTGATGACTGGGAGATCCTAgaACTGCATGCAGGATACATTGAGAACCAGTTGCTTCATCAAGTGAGAGTCGTCTTTCTTGGTCAGCTGCTTCCGATTTGGATCCAAAACCATATGTGTGTAGTTGTTAAAATTGTTGATCTGGATCCTGCTGTTGATTGCTTGAGGCTTGATGAGTTTACAGAGGTGGTTGTTTCGCCAAAGACAAGAAGTTTCTCTCCTTTGGAAGATCCTCAACAGTCTCCTTTTGCACAAGGAAATGAACACTTGCCGTCAGCAAGTGAAGAACAACCCTTGTTTGAAAGTGCACTCTCTGATCAGTGTATTGGGGATTATGATGCCGAAGTGGCTAAGGCAAATTCTAGTTGCTCAGACACAGAGGAACATGCTGACCTTGCTGAGACTTCCTTGATGTCAAGATTTTCTGTTTATcttcaaacattgttatatgGCCATAAACAAGGTTCTGTTGATGAAAATGAGTCTCATAGTTTAGCAGATGGATCAACTCAGCAGTTAACAACTGTTGTCTCTTCTTCTGAGGTTTCTCCAAAGCGCAATGATGACGTTGTCAAAGAAGCTGAATTTCACATGTGCTTGAGAGTTCAGCCAGAGTTCACAATAGACAGtattaaatcaaagaaaacaccTGTTTCAAAATCGCTATCAATGCGCTGCACATCCTTGCAGCATTCTCTGAGCTTTTATTCATTACAGCCTTTAGCAGTGTTTGTAGATGTTTCTTCATTGCCACCCCTAGTTTACAAGTCTTGGACTGATAATTTGGAATTACTTCCTCCTGGTAATGGAACAGTGGTAAAAACTATGCAAATTTGTAGATTACAGTCTCCAAAAGAGAGAAGTTTCTTAAGTCACACAAGTAACACAAAGGCCCATGATGGTTTTTCAAACAGtgatgttgaagcttcaaacCACTCCAGTCCAGTGGGAGAGGAAACTGATGAAGAATCTAATGATGTGTCTCTGCATAGTTGTATTGTTGCTATGGTGATGACAAGTAGTGACCATACCATCCGATTTGAGCAAGGGTCCTGTAAAGTGGAACAAGCTGAGCATGTATTACCAGGTCATGTTATAGTGTCAAAAGATCTGTGCCAGCTACTAGATTTAAAGGATCTATCAttagtcaaacttcagagcATATCATATGGTCCAGCAGAAATCAATGGTATTGTTTTGCAGCCTTTTGAGAACACCAGACTCAAGAACATTTCAGATGAATCTTTATTGGAAGCTTTCCAAGAGTGGATATGTTCTGTTTGTAGTGAAGACATTCCTTTTGTGCTTTGTAGTGGAATGCTGTTGACCCTTGATATGCCTCAAGaaagcCACCCTCTTCAGTTTATAGTCACTGTGTTGAGCTCTCCGAAGACTCCACAGTCGTCAGATAAGCTTCCATACTATCACCTTACACCTTGCAGACTTAAGAATGTGACAGTTGTTGTTGGGATGCCATGTAACTTTCCATTTAGTCCTCGTCAAGGAGTAACAACCCAAGATAAGAGCTCACAACTTTCCAAGCATAGGATCACAGATCTAGGTGGTGTAACAGAAATCTTTCACAAATGCCTGGATCATGCCCTGTCTGCTTTAAAACAAAGACCACTTGCCAATCACCTTGGAGGTAACCTCATCACTGGTCTACGAAGTGGTGCTCTGTTGATATGTGGCAGTAGTTCGGGAGCTGGGATTGGCTGTGGCAAGACAGCTCTTGCCCATGCAGTGTGCCATCAACTTCACCAATGGCCTGTGTGTGCACATGTAACAGTAGTGAATTGTATACCTTTTAgagGAAAAAGAGTTGAGACCATTCAAAAACAATGGCAGCAGATTTTTGTTGAAGCTGCTTGGCATCAGCCATCTGTTATTCTCTTTGATGATCTGGATCAAATTGTGTCAGCTCCTAGTGCCTTGCAAGAAATGGGTGGAGAAGCTCTGTACAAACAACGACTTGCTCAAGtatTCAAAGAACTTGTTGATATGGAAATTGAGAACAACAGCAGAGTAATTGTCATAGCAACCAGCAAGTCTCATGATTCATTGCACCCTTCATTACTGACATCAAGAGGGTGCCATGTCTTTCGCTGCTGTGTGGAGCTTCAGCCACCGGATGCTAATCAGAGAAAAGAGATCTTGTgcaaaatgatgaaaacaagATTTTCTGTGGAACAGTCTTGTGAAGTAGAACTCAGTTCCTTGGTGAAGAAGACAGAGGGATTTTCACTCAAAGACCTGGGATCACTGCAAGACCGTGCTTGTCATAAGGCAGCAATGAGAAAGATGAGAACTTCTAAAGAAAGAGGGGCCACCCCTGACATCAATATAGAGGATTATGACAATGCCCTTGAAGGCTTCACTCCAGCAGCATTAAGGGGAGTAACATTGCACACAGCTGGAGAATTAGGTTGGTCTGATGTTGGTGGACTGGCTTCTGTTAAGGATGCTCTCATGGAAACCCTGCTGTGGCCAACAAAGTACTCCTGGTTGTTTAGCAAGTGTCCTCTGCGACTGAGATCAGGACTTCTTCTCTATGGACCTCCTGGAACTGGGAAGACTCTTCTGGCCGGTGTAGTTGCCAAGGAGTGTAGGCTCAATTTTATCAGCATCAAGGGTCCTGAGCTATTGAGCAAATACATTGGAGCCAGTGAACAGGCAGTCAGAGATATGTTCACAAGAGCCCAGAGTGCCAAACCATGTGTCCTCTTCTTTGACGAGTTTGATTCCCTGGCACCTCGGCGTGGCCATGACAGCACAGGAGTAACAGATAGAGTTGTTAATCAACTGCTCACTCAGTTAGATGGCGTGGAGGGACTGGATAGTGTTTACGTTCTTGCTGCCACAAGCCGCCCAGATTTGATTGACCCAGCTCTCCTGAGACCGGGAAGACTGGACAAGTGTTTATACTGTGGGATACCAAATAAGTCGGAGAGGTTACAGATCCTGCAAGCCCTATCAAAGTCACTTACTCTAGCTGATGACACTGACTTAGATGTAATAGTGGACATGTGCAACAATTTTACTGGAGCAGACTTCAAAGCACTGTTGTATAATGCCCAGTTAGCAGCAATACATAGGAGTACAAACAGTAGTCAACTTTACGAAGGACTGTTTAGCGAGAGAGACAGTGAAAAGGAAGTTCTTGCAGAAATTCCTGGAACAGAGCAGTTTACCAGAGATGTAATTTACATCCCCAGCTTGACTGAGGGAATTGCACGTCCCACAGGCGAGGAACTGAATAAAATACGTTGTGAGGTTGTGGGTTTACAAGATCAACTGAAGCAAAATGAAAGGGATAGAAAGCTGGGAAGTACGACACGTAATGTCCCAAAACACCAAGCTGCGAGTGGAATAAAGATCACACAGTCAGATTTGCTGCAAGCAGCATCATCAATGGGACCCTCTGTGTCAGAAATTGAGAGACACAGATACAAGTCAATttaTGAGACATTTGTGAAATCACGTGGAGGAGAGTTTTCTGAAAGCTTACCAAGACAAGGAAGAGCAACATTAGCATGA

Transcript

BRAKERNUST00000011309

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O43933	Peroxisomal ATPase PEX1 OS=Homo sapiens OX=9606 GN=PEX1 PE=1 SV=1
Q5BL07	Peroxisomal ATPase PEX1 OS=Mus musculus OX=10090 GN=Pex1 PE=1 SV=2
G3GXG9	Peroxisomal ATPase PEX1 OS=Cricetulus griseus OX=10029 GN=PEX1 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003399 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17862 all species →	AAA_lid_3	AAA+ lid domain	Domain	Interproscan
PF09262 all species →	PEX-1N	Peroxisome biogenesis factor 1, N-terminal	Domain	Interproscan
PF00004 all species →	AAA	ATPase family associated with various cellular activities (AAA)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029067 all species →	Homologous_superfamily	CDC48 domain 2-like superfamily	Interproscan
IPR041569 all species →	Domain	AAA ATPase, AAA+ lid domain	Interproscan
IPR015342 all species →	Domain	Peroxisomal ATPase PEX1, N-terminal C-lobe	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR050168 all species →	Family	AAA ATPase domain-containing protein	Interproscan
IPR003960 all species →	Conserved_site	ATPase, AAA-type, conserved site	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23077 all species →	AAA-FAMILY ATPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0007031 all species →	Biological Process	peroxisome organization	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0005778 all species →	Cellular Component	peroxisomal membrane	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016558 all species →	Biological Process	protein import into peroxisome matrix	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
K13338	PEX1; peroxin-1	-	Membrane trafficking	ko04131	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 Montipora cactus 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 Montipora cactus, 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 →