Gene detail

Detailed information of aint_s0372.g9.t1 in Acropora intermedia

Genomic Location: sc0000372_pilon:244364...262525
NR annotation: XP_029207542.1, radical S-adenosyl methionine domain-containing protein 2-like [Acropora millepora]
Species Acropora intermedia · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

aint_s0372.g9.t1

GGCAGATCGATGAATCTGGCAAAACGATGCAGGAACAAAATGTTAATACGAAAGTACCGGAGGAAGAGGATACAACAATTGATTATCTGTCATTGTTTAATGTCGCCATCTTCCCACTAGCTGTGCTGATTGCGATTTTCACCAGGAAATTGCTGATTATAATCAGGAAAAGATTAATGATAAACAGATCAGTCGCTTTTTCACCGTTTAACAACGGTCATTGCTACGGCTCGAACTCTACGATTCCTAAAAGTGTCAACTACCATTTCACAAGGCAGTGTAATTACAAATGCGGCTTCTGCTTTCACACAGCCAAAACGTCGTTCGTTCTACCCCTGGATGAAGCTAAACGCGGTCTTAAAATACTGAAAGAAGCAGGGATGGAGAAAATCAACTTCTCTGGCGGGGAACCTTTCATTCACAAACGTGGCGAGTTTGTTGGTGAGCTCACCCGTTACTGTAAAGTGGAGCTCAAGCTACCTTCAGTCACTATTGTGTGTAATGGCAGTCTGGTAACGGAGCGCTGGTTTAAGAAATACGGAGAATTTCTGGACATTCTGGCCGTGTCGTGTGATAGTTTTAACGAGGAGACAAATCTTCAGATAGGGCGTCACCAGAATGGGAAAGATCACCTGCGCAGCCTGTCGAATGCACGTGATTGGTGCAGAAAATATCGAGTAGCCTTCAAAATCAACACCGTAGTAAACTCGTTCAATGTTGAGGAAGACATGAACCACAAAATCCAGGAACTTGCTCCAGTCCGTTGGAAGGTATTTCAGTGTCTTCTTATTGAAGGAGAAAACTGCGGCCAAGAGGCTTTGAGAGATGCAGAAAAATTTGTTATTTCCGATGACGATTTCACTCGGTTCGTTCAAAGACATTCAACATTATCTTGTCTAGTTCCGGAATCAAATGAGAAGATGCGGAATTCCTACCTTATCCTTGATGAATATGCGGTTCCTCGACTGCAGAGGTGGTGCCAAAGTTCCTTCAAAGTCAATACTAGATGTGGGAGTCGAGAGCGCTATTAATGCTAGTGGATTTGACGAAAAGATGTTCCTCAAACGTGGTGGCAAATACACTTGGAGCAAGGCCGACATGAACTTGACGTGGTAGAGAGATCGCTCAGTCCTGACCAGCGAGTCTTTCGTGACAGCATCATAACATTATTTACATCTTGGCACAAATGTATAGCAAGTACTACACTtatcaactatcgtcgtttggacgagaaaaaatgaaatccctcaaactttctcgggagaatggtctatataaggggttcacataaataaaactctcagctcagttcgattcgtattttagcagtagtgcgaccatcttggttttgctgctctgagagggctttcagcggccattttagaccacacatttagaattttccttacaaagaaaacgttacagatccgaacagaagagcattattcgagacaagcagatgtttttttgttagattaagagtcttttttgggaatttgattgaaatctgatttttttacaaaatctttaatttcttacctATTGAACTACTCTTCAAGTGCCAAAAAAATGGCCGAGTTTAAAGGAAAATATCGTTAAAGATACATTAGTTGGCATCCTAAAACAGCATCCCGGTTAAAGAGTAATATTTCGTTTGTAAGAAACTGCAATGAAAGGTTTGGGCAGTTAAAAGGACAAAATTACAGAGGAAGTTTCAACTGTACTTTTGTCTGCAAACACCGCGTTCGTAATTAGCATAACAACAATAAAATAACGATTTACTAAGAATATAATGATAAATGCCACTCACCCCGTAAACTGTCTAGAACTGGATATTTCAATATATATCAAATTTTAGTTCCAGTCGGATACAGCCGCACTTTTGATAATTTGTTGTGCAAAATCACTGTAATCAACTGAGTTGAATTCTTCAAAGCCCGTCAGGACTACCATCAGCCGAAAAAATTGTCTTTCGCCTCATAAGCTGCCGTGTACATGGTGTTAAATATTTCTTTGTTATTCAGACGGGTTGGCGTGACGCGTGTTTTCCCAATTAGATTTCCGTGATAAGTGAGCTTTCTTTGACCTAAAAGTCACGATAGACAGGAGGGGATGAAGACTTTGTAACGTAGTGTTCATCTTTCAGGGTACATTCAGCATGTATTCCTCTTTATACATGTAAGTCTAATAAAAATCAATTAACACA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8WXG1	S-adenosylmethionine-dependent nucleotide dehydratase RSAD2 OS=Homo sapiens OX=9606 GN=RSAD2 PE=1 SV=1
O93384	S-adenosylmethionine-dependent nucleotide dehydratase RSAD2 OS=Oncorhynchus mykiss OX=8022 GN=rsad2 PE=2 SV=1
Q5RCW8	S-adenosylmethionine-dependent nucleotide dehydratase RSAD2 OS=Pongo abelii OX=9601 GN=RSAD2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007114 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13353 all species →	Fer4_12	4Fe-4S single cluster domain	Domain	Interproscan
PF04055 all species →	Radical_SAM	Radical SAM superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026372 all species →	Family	S-adenosylmethionine-dependent nucleotide dehydratase RSAD2	Interproscan
IPR007197 all species →	Domain	Radical SAM	Interproscan
IPR006638 all species →	Domain	Elp3/MiaA/NifB-like, radical SAM core domain	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR051196 all species →	Family	RSAD2 and Viperin antiviral	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21339 all species →	RADICAL S-ADENOSYL METHIONINE DOMAIN-CONTAINING PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0005811 all species →	Cellular Component	lipid droplet	Interproscan
GO:0051607 all species →	Biological Process	defense response to virus	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster binding	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
K15045	RSAD2; radical S-adenosyl methionine domain-containing protein 2	-	Influenza A	ko05164	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 intermedia 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 intermedia, 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 →