Gene detail

Detailed information of amic_s0002.g162.t1 in Acropora microphthalma

Genomic Location: sc0000002_pilon:2090195...2097459
NR annotation: XP_029196003.1, protein disulfide isomerase-like 2-2 [Acropora millepora]
Species Acropora microphthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

amic_s0002.g162.t1

CAGTCTTTCTTGCGGACAGTCGTTGAGAGCGAAGACACAGCTTTGTTGTCCGTTTTTGTGAAAATGTTTCGCACGTCAGCCTTTTTTTTCGTCCTAGCAGGACTTTGCGTGTGTCAAGCAAAGGTTGTAGACCTTACAAGTGCAAATTTTGACACGGTTGTAAATGGTGACAAATTTGCTTTTGTGGAATTTTTTGCACCCTGGTGTGGTCACTGCAAGGCACTTGCACCAACTTATGAAAAACTAGGAGAAGCATTTGCCAATTCTGATGACGTAGTGATTGCCAAAGTTGATGCAGATGGTGAAAAAAGTCTTGGCTCAAGATTTGATGTGTCGGGCTATCCAACTTTGAAGTACTTTCCTAAAGGAAGTACTTCTGCTGAAGAATATTCAGGTGGAAGAGATATAAAGGATCTGGTGTCTTTTGTGGAAAGCAAATCTGGTGCCAGAGCTAACAAAGCTCTTTTCAAGACCAATGTTGTGGATTTGGATTCTGGAAACTTTGACTCAATTGCTATGGACAAGACAAAGGACGTACTGGTTGAATTCTATGCACCATGGTGTGGTCATTGTAAGAGGCTTGCCCCCACATATGACCTTGTTGGAAAAGCTTTCAAGAATGAACCAAATTGTGTTGTGGCCAAGGTCGATGCTGATTCAGAGAAGGATTTGGGAGAAAGgtttgGAGTTACTGGTTTTCCCACACTCAAGTTCTTCCCCAAGGACAACAAGGAAGGAGAAGAGTACAACGGAGGTCGTGAGGAGCAAGACTTCATAGATTTCTTGAATGAAAAATGCAAAACAAACAGAGTGTCAGGTGGAGGAATCAACCAGGAGGCTGGAAGGATTGACAAATATGATGACTTTGTCAAGGATTTCATGGCTGACCAGGATAAACGCGATGCAATCCTTGCAGAGGCTAAATCCCTGATTGATGCTCAAGAAAACACCAAGATGGCAACCTACTACACCAAAGTTATGGAGAGGGTTCAGTCCAAAGGGGATTCATTTGTTACAGTTGAACTTGATCGTTTGAAGCGCTTGATGGAGGGCTCCATAAGCGATAGTAAAAAAGATGAATTTAGCATGCGCAGCAACATCCTGGCGCAGTTCAAGGGTGATGTAACAAAGGAAGAACTATAGAAGTGCTCAAGTGTTGTGTGAGAGCAGTTTCTTATTTTTTTTGGCTATTTCTGGTGAATAGGAAAGCTGAATGCTTGTCATTGTCATTGTCATTTTTTTAACTAGGTGCAGTAACAACTCGGCATTATTCGTAGCTTATCAAAAATACCTTTCACCTTTCTGGTGCTGTTGTTTTCGTGAGAAACTGACACATTCCATTTTTGTTCAAGCTCTGAGACTGGGACACTGTCTCAGTGAAAAGTAGACTTTCTCATTATGACTAAGAGATCATCAAAAGTAGCACAGTCATTATTTCCTCAATGTCGAGAAAAATTTAATCCTACTAAGTTTTGAGAACAATGCTTGAATGTTTAATGTTGCAACCTATGGCTTCATTGTAATGTGCTCTGGAATAAACACAGCAAGAACACTTTGCAGCAAGAACACTCTGTAGCATAGTACATTCATATTGTGGTGCAAAAATAAGGTTGCTGTAATGGTTGTCCCCTTTTGCTAAAATACTTTCAAAATGAAATAAAGCTCTCAGAGTTTAAAAAAAATGGTCTTCTAGTGTGGCAGCATACATACTCTATTAGCAATGCAAGACAAAGTGCATTGTCCTCATACTCTGAAATATTTTAAAGTTCCAATTGCCTTCATTTCAAACTGATTAGTGCAattattgttattattattattattattattattattactactattattGTAAGTGAGGGGGAAATATACCAACAGTCAATAAGATGTGATAAACAGCTAAAGCTGTACTTAACAACTTTGTTTTCATAACATTTTATTTTCATCACTACTTTACACTTGTTGCCAAGTAAgtaaatatagattattacatgttaagagcctgagtttttaataccatatcgcaaacgagcgagtctttgagcaggggagcaatatggtattaaaaacgagtgaataaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q942L2	Protein disulfide isomerase-like 2-2 OS=Oryza sativa subsp. japonica OX=39947 GN=PDIL2-2 PE=2 SV=1
O22263	Protein disulfide-isomerase like 2-1 OS=Arabidopsis thaliana OX=3702 GN=PDIL2-1 PE=2 SV=1
P38661	Probable protein disulfide-isomerase A6 OS=Medicago sativa OX=3879 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002109 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07749 all species →	ERp29	Endoplasmic reticulum protein ERp29, C-terminal domain	Domain	Interproscan
PF00085 all species →	Thioredoxin	Thioredoxin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005788 all species →	Domain	Protein disulfide-isomerase, thioredoxin-like domain	Interproscan
IPR011679 all species →	Domain	Endoplasmic reticulum resident protein 29, C-terminal	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR036356 all species →	Homologous_superfamily	Endoplasmic reticulum resident protein 29, C-terminal domain superfamily	Interproscan
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR051063 all species →	Family	Protein Disulfide Isomerase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45672 all species →	PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003756 all species →	Molecular Function	protein disulfide isomerase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0006457 all species →	Biological Process	protein folding	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
K09584	PDIA6, TXNDC7; protein disulfide-isomerase A6	EC:5.3.4.1	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 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 →