Gene detail

Detailed information of amic_s0280.g21.t1 in Acropora microphthalma

Genomic Location: sc0000280_pilon:359767...377965
NR annotation: XP_029214183.2, eukaryotic translation initiation factor 3 subunit A-like [Acropora millepora]
Species Acropora microphthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

amic_s0280.g21.t1

ATGACCCCAGAAAGCATATTGCTCAGTTTTGTCAGTGGAGAAGACACTCAGGACCGAACAGACCGTGTCATGTTGACACCTTGGGTTAAGTTTCTATGGGAAGCATATCGCAATGTGCTTGAGCTTTTACGCAACAATGTTCGAGTGGAGAAGCTCTACCATGACACTGCCCAGCAAGCCTTCAAATTTTGTTTGAAGTATTCACGGCGGACAGAGTTTCGAAAGCTGTGTGACAACCTAAGGAATCATTTAAACAATGCCATCAAGCATCAGGGTCAGCCAAATACAGTAAACCTTACCAATCCAGAAACTCTTCAGCTTCACTTGGAAACACGCTTAGCCCAGTTAGAGAGTGCTATTAACATGGAGCTTTGGCAGGAAGCTTTTAAGGCTGTGGAGGATGTTTATGGGTTAATGCAGCTCTCCAAAAGATCTCCAAAGCCACAAGTGATGGCCAATTATTACCAGAAGGTTGCCCTTGTCTTCTGGAAGGCTGAAAACTACTTGTTCCATGCTGCTACTCTCCATCGTTTGTATGTTCTTTCCAAAGAACAAAGACGGACCATGACTGCTGAAGAAAACCAAAAGATGGCATCACGTGTATTGCTGTCAACTCTTGCCATTCCAATACCTGTTTCTCTTAGTGAAACAGAGAAGCACTTGGAACTTGATGAAAATGCACGGGAGAAATCCCGCAGACTAGCTAACCTCCTTGGACTGCAGAACATTCCAACAAGATCCTCACTTGTCAATGACATGCTGAAGATGAATGTTCAGCAGCACATTATGCCACAGTTGCAAGACCTGTATCACTTTCTGGAGAGAGATTTCTCGCCTTTAAAGCTTTGTGCAAGGGTCAATGTATTCTTTGAGTTCTTACTGAACAATGAAGAGTTGGAGCTTTCAGACTATGTGAAGCCTTTGCAGGAGGTGTCCATTGCACGTCTGTTAAAACAGGTATCTCAGGTGTACCAGACAATGCAGTTTTCCAGACTGCAGGCTTTAGTGCCTTTTGCCACAGAGTTCCAACTTGAAAGAGCTATTGTGGATATTGCTCTGGAAAATGAACTGCAGGTGCGTATTGACCACAAAACAAAGGCAATAAGTTTTGGACTTGATCTTCATGTTGCTCATAAAGAAGAGGTACCCGAAGGGCCATACTTGCAGTCAATGCCCTCAGAGAGGCTGAGAAACCAGCTAACACTGATGTCATCAGCATTGCACCAGGCCATCAGTAAGATTCATCCTGACACCATCAAGGAAAACTGCCAAGAGGAACAGCAGAGGATAGTTCAGATCTATTTGCGAAATTCTAAAAAGGAACACAAGCAGATGCTGGAAAGGAAAACTGTGATTGAAGCTCGCAAAGAGTACCTGGAGTCTCTGCATGTTAAAAGGGAGAAAGAGGAGCAGAAGATGTTACTTTTGCAACAGAAGGAGAGTCGGCAAGCTGAGAAGAAGCGACTTGATGAAGAAAGACAGAAGCGGGAGGTACTGCGTCACAAGCAAGAGCTTCAGGAGATAGAAAAGAAACAAGCCATGGACAAGATTGCTGCACTTAAGAAGACCTCTGTGGGTGCTAAGGCGCTGAAGGACCTCACTGATGAGGAAATAAAAGCCATGAATCCAGATGCTATTTTAGCCAGGCAAGTTGAACAACTTGACAAGGAGAAAAAAGAACTTCAGTCCAAGCTCAAGGCTCAAGAGAAGAAGATGGATTACCTTGCCAGAGCAATGCGTGTTGAAGAGGTTCCTTTGTTAAAGAAACAGTATGAGGATCAGCTTGTATCGGATAAACAGTTTTGGGACGAGCAAGAGGAGGAGAGGATAAATAAAGCTGTTGCAGAACACCAGACGTTGGTGGAGACCAGTGGTAGACTGCAGCGCATGCTTCCTGACAAATATTCTTTCATTGAGAATTTAACCAAGACTCGGAAGGCAGCTCATGAGGAAAAAATGAAGGAATTTCAAAAGCACGTGGATGAGGTTCGCAAGGCGCGCTTGGAGGCGCGACGTAAAGAACGCATGGCTGAGAGAAAGGTGCAGCGAAGGATTGAAAAGGAAGAACAGGAAAGAAAAGAAAAAGAGGAAAGAGAAAAAAGAGAACGCAAAGAGGCTGAAGAAGCTGCTCGAAAAGAAAAAGAGGACAAAGAGCGCGAGTATCGAGAGAAAATGGCTAAACTGGATGAAATTGAACGGAagaagagagaaagagagaaggagattgaggaaagggagaaggacaaggatcaaggagGACTGGGGTATCGTGACATGGACAGAGACAGAGACCGATTTGGGCCACCAGGCAGAGGTGATAGAGATTGGAGAGATGATCCAAAAGGAGCTCCTCCATTGAGACGCGATGAGCGTGACAGGATGGGATGGCGTCGAGATGAACCTCCACGTGACCGGGACTCAGACTATGATGGGCGGCCGCGCGATCGTGATTCTGGTGGAGGTTGGCGCCGTGGTGCAAGTGATTTACGAGATGAGCGATCACGTGATTCAGGGCAAGGGGGAGCTCGGAGGCGGGATGAACAGGATGGACCTCGTGATGAGGGGAGTTCTTGGAGAAAGCCTGGTGACAGAGATGAGCCCCAAAGGCGAGATCTTAACCGTGGCAGACTGGACGATCGCAAACTGGACGATCGCTGGATGGACGATCGTAGACGCATGGATGACCGTAGAATGGATGACCGTAGAATGGATGATCGCAGAATGGATGATCGCGGACGTATGGACGATCGACGAATGGATGATCGTGGAAGCGGTTGGAGAAGGGATGATCGTGACCGCCCTCCTTCGAGTGGATGGcgtgatcgtgaccgtgaagagcgtgatcgtgctcCCCCATCTTCATGGCGTGGTCGCGATGACCGCCAACGTGACGAGCGCGATAGGCAAAGTGGCGGATGGCGTGACGGCGGTGATAGAATGGGTGGTTGGGGACGACGCGATCGGGACGAACGCGAGCGTTCATCAGGAGATGGGTGGCGCAGTGGTGATCGTTTGAACCGAGAACGCGAAGATCGTTACCGTGGAGACCGAGATGTTGATCGCTTCAGAGGAGATCGTGACAGAGATGATCGTTATCGTGATGAACGTGAAAATGACCGTTCTGACTGGAGAAGTGACCGGGTGGATGATCGTGGTGGCGACCGCGATGGGGGAACAAGAGGAGATGAACCGGGCCGTGACCAGTGGAGGAGGGAACCACCACCTGCACGCACAGAAGGTAAGTCCTGGTCTGCTTCTCGCCGTGGTCGTGAACGACCGCCCGCAGAGCAGTCTGATCCAGAAGGTTGGACAACAGTTCAGTATAAGTGA

Transcript

amic_s0280.g21.t1

GGACCAGAAAACCTTGCGCCACCACTCTTTCTTTCTAACACGGTGAAGGGGCAAGGAGCGGGGTTTTTACGCCATGCCTGTGTATTTTCAGCGCCCAGAAAATGCTCTTAAAAGAGCCAACGAGTTCATTGAAGTTGGCAAGAGGGAGCCAGCATTAGATGCATTGTATGATGTTATAAAGAGTAAAAAGCACCGGACTTGGCAGAATAAGATCCATGAACCTATTCTGTTCAAATACTTGGAGTTGTGTGTTGACTTACGAAGAAGTCATGTGGCCAAGGAAGGATTATATCAGTACAAGTTAATATGCCAGCAAGTTAACATTGCATCTCTCGAAGATGTCATTCGTTACTTCCTCAAGCTTGCGGAGGATCGGGCGGAGGCGGCTCGTCAGGAATCAAGAGAACAGGTTCCTGTTGTGGAAGATTTGGATCAGATAATGACCCCAGAAAGCATATTGCTCAGTTTTGTCAGTGGAGAAGACACTCAGGACCGAACAGACCGTGTCATGTTGACACCTTGGGTTAAGTTTCTATGGGAAGCATATCGCAATGTGCTTGAGCTTTTACGCAACAATGTTCGAGTGGAGAAGCTCTACCATGACACTGCCCAGCAAGCCTTCAAATTTTGTTTGAAGTATTCACGGCGGACAGAGTTTCGAAAGCTGTGTGACAACCTAAGGAATCATTTAAACAATGCCATCAAGCATCAGGGTCAGCCAAATACAGTAAACCTTACCAATCCAGAAACTCTTCAGCTTCACTTGGAAACACGCTTAGCCCAGTTAGAGAGTGCTATTAACATGGAGCTTTGGCAGGAAGCTTTTAAGGCTGTGGAGGATGTTTATGGGTTAATGCAGCTCTCCAAAAGATCTCCAAAGCCACAAGTGATGGCCAATTATTACCAGAAGGTTGCCCTTGTCTTCTGGAAGGCTGAAAACTACTTGTTCCATGCTGCTACTCTCCATCGTTTGTATGTTCTTTCCAAAGAACAAAGACGGACCATGACTGCTGAAGAAAACCAAAAGATGGCATCACGTGTATTGCTGTCAACTCTTGCCATTCCAATACCTGTTTCTCTTAGTGAAACAGAGAAGCACTTGGAACTTGATGAAAATGCACGGGAGAAATCCCGCAGACTAGCTAACCTCCTTGGACTGCAGAACATTCCAACAAGATCCTCACTTGTCAATGACATGCTGAAGATGAATGTTCAGCAGCACATTATGCCACAGTTGCAAGACCTGTATCACTTTCTGGAGAGAGATTTCTCGCCTTTAAAGCTTTGTGCAAGGGTCAATGTATTCTTTGAGTTCTTACTGAACAATGAAGAGTTGGAGCTTTCAGACTATGTGAAGCCTTTGCAGGAGGTGTCCATTGCACGTCTGTTAAAACAGGTATCTCAGGTGTACCAGACAATGCAGTTTTCCAGACTGCAGGCTTTAGTGCCTTTTGCCACAGAGTTCCAACTTGAAAGAGCTATTGTGGATATTGCTCTGGAAAATGAACTGCAGGTGCGTATTGACCACAAAACAAAGGCAATAAGTTTTGGACTTGATCTTCATGTTGCTCATAAAGAAGAGGTACCCGAAGGGCCATACTTGCAGTCAATGCCCTCAGAGAGGCTGAGAAACCAGCTAACACTGATGTCATCAGCATTGCACCAGGCCATCAGTAAGATTCATCCTGACACCATCAAGGAAAACTGCCAAGAGGAACAGCAGAGGATAGTTCAGATCTATTTGCGAAATTCTAAAAAGGAACACAAGCAGATGCTGGAAAGGAAAACTGTGATTGAAGCTCGCAAAGAGTACCTGGAGTCTCTGCATGTTAAAAGGGAGAAAGAGGAGCAGAAGATGTTACTTTTGCAACAGAAGGAGAGTCGGCAAGCTGAGAAGAAGCGACTTGATGAAGAAAGACAGAAGCGGGAGGTACTGCGTCACAAGCAAGAGCTTCAGGAGATAGAAAAGAAACAAGCCATGGACAAGATTGCTGCACTTAAGAAGACCTCTGTGGGTGCTAAGGCGCTGAAGGACCTCACTGATGAGGAAATAAAAGCCATGAATCCAGATGCTATTTTAGCCAGGCAAGTTGAACAACTTGACAAGGAGAAAAAAGAACTTCAGTCCAAGCTCAAGGCTCAAGAGAAGAAGATGGATTACCTTGCCAGAGCAATGCGTGTTGAAGAGGTTCCTTTGTTAAAGAAACAGTATGAGGATCAGCTTGTATCGGATAAACAGTTTTGGGACGAGCAAGAGGAGGAGAGGATAAATAAAGCTGTTGCAGAACACCAGACGTTGGTGGAGACCAGTGGTAGACTGCAGCGCATGCTTCCTGACAAATATTCTTTCATTGAGAATTTAACCAAGACTCGGAAGGCAGCTCATGAGGAAAAAATGAAGGAATTTCAAAAGCACGTGGATGAGGTTCGCAAGGCGCGCTTGGAGGCGCGACGTAAAGAACGCATGGCTGAGAGAAAGGTGCAGCGAAGGATTGAAAAGGAAGAACAGGAAAGAAAAGAAAAAGAGGAAAGAGAAAAAAGAGAACGCAAAGAGGCTGAAGAAGCTGCTCGAAAAGAAAAAGAGGACAAAGAGCGCGAGTATCGAGAGAAAATGGCTAAACTGGATGAAATTGAACGGAagaagagagaaagagagaaggagattgaggaaagggagaaggacaaggatcaaggagGACTGGGGTATCGTGACATGGACAGAGACAGAGACCGATTTGGGCCACCAGGCAGAGGTGATAGAGATTGGAGAGATGATCCAAAAGGAGCTCCTCCATTGAGACGCGATGAGCGTGACAGGATGGGATGGCGTCGAGATGAACCTCCACGTGACCGGGACTCAGACTATGATGGGCGGCCGCGCGATCGTGATTCTGGTGGAGGTTGGCGCCGTGGTGCAAGTGATTTACGAGATGAGCGATCACGTGATTCAGGGCAAGGGGGAGCTCGGAGGCGGGATGAACAGGATGGACCTCGTGATGAGGGGAGTTCTTGGAGAAAGCCTGGTGACAGAGATGAGCCCCAAAGGCGAGATCTTAACCGTGGCAGACTGGACGATCGCAAACTGGACGATCGCTGGATGGACGATCGTAGACGCATGGATGACCGTAGAATGGATGACCGTAGAATGGATGATCGCAGAATGGATGATCGCGGACGTATGGACGATCGACGAATGGATGATCGTGGAAGCGGTTGGAGAAGGGATGATCGTGACCGCCCTCCTTCGAGTGGATGGcgtgatcgtgaccgtgaagagcgtgatcgtgctcCCCCATCTTCATGGCGTGGTCGCGATGACCGCCAACGTGACGAGCGCGATAGGCAAAGTGGCGGATGGCGTGACGGCGGTGATAGAATGGGTGGTTGGGGACGACGCGATCGGGACGAACGCGAGCGTTCATCAGGAGATGGGTGGCGCAGTGGTGATCGTTTGAACCGAGAACGCGAAGATCGTTACCGTGGAGACCGAGATGTTGATCGCTTCAGAGGAGATCGTGACAGAGATGATCGTTATCGTGATGAACGTGAAAATGACCGTTCTGACTGGAGAAGTGACCGGGTGGATGATCGTGGTGGCGACCGCGATGGGGGAACAAGAGGAGATGAACCGGGCCGTGACCAGTGGAGGAGGGAACCACCACCTGCACGCACAGAAGGTAAGTCCTGGTCTGCTTCTCGCCGTGGTCGTGAACGACCGCCCGCAGAGCAGTCTGATCCAGAAGGTTGGACAACAGTTCAGTATAAGTGAACAAATGTGCTCTACCCTGGCAATAAACGGAACGGATCGCCAAAGACCACCCCAGCAAGGACTTAATCTGCTTTTCAGTTACCACTATCAGTCATCCTTGGTGTTTGGATTTCTGCACTTACAATATAAAGAAATTGATAGCAGCACTGATGCAGCCATTGCATATTGGCTAACCGGAAAGATGCTGGCCGATTGTAAATGTTTAAATTTTCTTCTCTTGGAAGCAACGACGAAGTTTCAAAATGTTACCACTATCACAGTGACATTAAGCTCGGAGCGATATACATCGCTCTTCGGAATCATTTCCCAAGTCCAGCCTTGCACTAAGTTTATTTCGGATCAAATGTTTTCAGTCCCACATAGCAGACAAAGAGTTTAAGAGTTTGAATGATCGGTGTGAATGAGACAAAACCCAAATCATTAACCACAGTGGTTGAATATTAAGTCCTTACAAAGAGTTCCTTCATCCCTTTTCACCCCGAGACCATTATAGTCTTGGGGTTTGGCTTTACCGCTGTCATATGTTATAAGCCCAGTTTCCTCTTCTTTTGTTATCTCCTGCTATGAAGTATCAATACATAGTTTACTTTCTGAAGCGCTGCAAGTGGAAAGTTAGAACATGGCATTTAATTTACAATTAATCCGAATACGTATTTTACCGCCAGGGTAGAAGTCAGCGAATTAAATTTAATGGTTATGAAAGGCGTGTCCAAAATTATTGTTCTGCCAGTTCAATGACGAAAACTCGTTATTGAATTATTCTTGAGAGAAACGATTGACCCAGCTAATTGTTCACCGGTAATTTTTCTTGAGGTGTTCCTAAGTACACGTTCGTAGCCTTCTGagggcctgattacatggtgagtttcagcccgggctgaaatttcgctccgcccaccgggctgaaatattgttgcaattacatgctcaatttcagcccgggcgcaaaacgcaaatttccgggagaaagtttactgaggtgcgaaaacacagtcgatgcgcatgcttgcgttcctttttcggtccggaatgaaaaacatgatagcgattacatggatttttcagcccgtttggccgggctgaaaatcctagccgggtttgaaaataccgggctaggatttttgtcccgggctgaattgtgccccgggctgaatccctctccatgtaatcagcaatttgatttttagaggatttgtttccaaaaccgggctaaagtttcagcccggttagGAATGGGCCATGTTATCAGGTCCTAAAAGGTTTTATTTATTGTTTTATTTCCAATGTCATATTTTTAAACACTGATAACGAGGTGGTGAGGAGAAAACAGCGTGCCCGTAAATTGGTTCTGATGCGCCCGGTGAACTTTGATTGGTTGCTCGCACCTTATGTTATTGAAGGCTGCTAAACAGAGTGTGCTGAATGTTATTTTATGAATTTTCATCGAGTTTGTTCAGAGCTTTCTTGACTCAGTCACCTGTGGCTTTCAAATAAATGTGATTGGATGTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A7SK48	Eukaryotic translation initiation factor 3 subunit A OS=Nematostella vectensis OX=45351 GN=v1g190699 PE=3 SV=2
P23116	Eukaryotic translation initiation factor 3 subunit A OS=Mus musculus OX=10090 GN=Eif3a PE=1 SV=5
Q6PCR7	Eukaryotic translation initiation factor 3 subunit A OS=Danio rerio OX=7955 GN=eif3a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003924 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01399 all species →	PCI	PCI domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000717 all species →	Domain	Proteasome component (PCI) domain	Interproscan
IPR027512 all species →	Family	Eukaryotic translation initiation factor 3 subunit A	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14005 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 3, THETA SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001732 all species →	Biological Process	formation of cytoplasmic translation initiation complex	Interproscan
GO:0002188 all species →	Biological Process	translation reinitiation	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005852 all species →	Cellular Component	eukaryotic translation initiation factor 3 complex	Interproscan
GO:0043614 all species →	Cellular Component	multi-eIF complex	Interproscan
GO:0071540 all species →	Cellular Component	eukaryotic translation initiation factor 3 complex, eIF3e	Interproscan
GO:0071541 all species →	Cellular Component	eukaryotic translation initiation factor 3 complex, eIF3m	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
K03254	EIF3A; translation initiation factor 3 subunit A	-	Translation factors	ko03012	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 Acropora microphthalma 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 Acropora microphthalma, 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 →