Gene detail

Detailed information of FUN_037460-T1 in Dendrogyra cylindrus

Genomic Location: contig_158:359278...366181
NR annotation: XP_020621424.1, double-stranded RNA-specific adenosine deaminase-like [Orbicella faveolata]
Species Dendrogyra cylindrus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

FUN_037460-T1

ATGGCTTTACAAAGCTCTGAGGGTTTGCCAGTTCTGTTAAGATCCTTTCCTCAGCTGACTTTGacgaaaacgaaaaactGTACCTCACCAATGAGTAACGATGTCAAAGAACACAAGGACGCCAGAATATCATCAAAGAAAGGAGAGGGAGAGCATAGCCAAGGATCTGGTGAAATGCAATCAAGCCAAGCGGAAACAAAGACAAAGCCACAGTCTAGTGCACAAGATGAAGGAACTAAGACGAATTCACTTTTGAGTGAAACTCTTGAAAACCAAATTCTTACAACTGTGCGAAATATGCCACATCCTTGTACATTAAGTGATATTCTGCACAATGTCACCAACTCCGCTAACGAAAGAAGTGTGATTGAGTGTATCAACGAACTAGAGGGAACAAAGAAGATTATTAGAATTCTGGAAATGCCTCCAATGTGGAGAATTGCAGAGACAACAGAAGACATTAAAGGAGAAGTTGTTGGATCAGTACCTCAATTGGAGACTCTGGTGCCTGCTTATGAATCAGATAAGAGTGAAGAGGAAGCACAAGCAGAGGTCATTAATGACACCAAAAGTTCGTGTTTCAAAGATGAAGACACATCTGTAGATGAGAAAGCAGATGCAGTTGATGGAGATATAAACCAAGGCTTTGCAAGCCCACAAAGCCAAGAAAGTGTCAATGCATCTGGTGAGCCATCATTGTCAGCAAATCAGGCATTGTCGCCCAGTAACCCAGGCAGTTATGATGACAGTTCAGGCCCATCTAGCTTGCCCGATTTATCTGGTGAAGAATTCTCTAGCGGTATTGATTCTGGCAAATCCCCTGCATCACCATTTCATCAGCGTGAATCTCTTCCTCCAACACGCAATCATGGAAGACTGGTCCAACCTGGTCCATCCCCAGTTGCTCCTTCCTTAATCCCTGGGGGGCCAGTGCGATCATCAGGAGGCCCCCCTCCACCTCCCTCGGCTCATCTCTTCAGCACCTTGATGTCCCAGTGTGCCAGAAAACCTGCCCCAGTTGTCATGGCAGCAAGGCCTACCTTTTCACCCTTGAGTCTAAACCAGCAACCTTCTAGGATTGCACCACCTCGTCCACTGATGCAGTCATTTGTTCCTCGACCAACTCGACCTCAGATGCCAGCGCCTCGATTACCTTCCAACTCCTTAATGAATCGTGAAACATCCACGTTTACAAATTCTAATCCAAGCAGGCAGATGTCATCACTACCTGGTTCTGTTgaccaaaattattttcaacaaaaccaTTGTTCTAACAGAGACGAGCATAAAGAAATAACTGTCGCTAGTGGAGCTGTAATTGCCCATAACCAGTCAAGCCTGGAAAACTTCAAAGCACGAGAGCAGTTACAAGCGCATCATTCTCATCCTCCTCCTTATGGATATGGATCGATTCCAACAGATAACGCACAGGTCACACATTCAACAGTTCCTAACTTTCGTCAAAGCTCGTCAGATAACTCCTCCAAGCAAGCTACTTCCAGACTTCCACCCCCTCCCTCGGCACATCTCTTTCGAAACTTGGTCAGTCGAGGTCCCCAAGCGGTGTCCACGTCGAGCAAGAGTCCACTGACCCGTGTGCCTCAGCAAGCTTCAAGGTTAAGTGATCTTGAAGCAAATGTGCTGGACTTTATGAAGAGAGAAAGGAAATCATGTGAAACACTACAGCTGGCCAGGCAGTTTGGTTTTCATAGGAAGAAGGAGATCAATCCAATTCTCTATAAACTGCAGATGTTAGGCTTGATTTACAAAATGCATGAACATCCTCCGACGTGGAAGGTGCGACAAGAAGTGAGCTCGCTGACGTTCCAAGGTTCAAGAGCTGCTGAGTCCACTTCTGTCGAGCTTCCCCAGAAAAGAACTTACCCTGATGCTGCTGATGAACAAGGACAAGTGCATCCAGGTGTGAAGAAACCCTTTCATCAGGTGCAGACACCTCCTACACCCTCTGGGGTCGGATTGAGTCTGTTTGGACCAACACAGAATGCTCCTACCATGCCGAGCTACATGTCCACCCCACAGCTACCACCTGCAACCTTAGGTACCCCTCCAGGGTCCAGCAACAGTCTTCCAGATGTACTTTCCAGTGTCGCTTATGCCGCAATTAACAAGAACCCTGTCAGTGCCCTTAACGAGTACGTGCAGAAAAACAAGATGAAGCTGACATTTGAAACAATCAGCCAAGGACGCGCCTTTGCAGTTGCCGCCAAGATCAACGGCAAGCTATTCCCTGCAGCAGAAGCACGAAACATCAAAGATGCCAGACGCGAGGCAGCGGATGTTGCTTTGAGAACCCTGCTTGGTCGGGGTGCCAATGCAGGTGCCGAGGAAGGGTCTCCTTTGAACATAACTGGCCCACCTGCAAACATTTTGAGCAAAGTCCGCACACACTTCGATCTCATAGCTGCGCTGTCGCATCACACATTTCTCCAAATCGCAGCCTCCATTTCCGACAAGTTCGCCGGGAGAAAGGTCGTGGCATGTATCATCATGAAAACAGGCGTCGACGACTCTGGCCGAGTTGTTGCCGTGGGAACTGGTAACCGTTGTGTGACTGGTCAGCGGTTGAGCATGGAGGGAAAGGTGGTAAATGACTCTCATGCTGAAATTGTAGCTCGGAGATCTCTGTTGCGGTTCTTCTACAGACAATTAAGCAGTTACTACGATGGAGATGAATCCATTTTCGCACCGAGAGAGGGCTCTCAGAGACTCGTTGTTCGCCAGAATGTGACATTTCATCTGTACATCAGTACAGCGCCTTGTGGAGATGGAGCCTTGTTCACTCCCCGCGAGGAACCCAACACGGACATGTCGGAACACTCAACACAGCATAATCCTACATTCACGACCAAACAACAGGGCATCTTAAGGACCAAGATCGAAGACGGTGAAGGCACGATTCCCATTGACCCCTCCGATGGTATTCAAACATGGGATGGGCTCTTACTTGGCAACAGATTACGCACCATGTCGTGCAGTGATAAGATATGCCGCTGGAACGTTCTTGGACTTCAAGGCGCTCTCTTGACTCACTTCATCGAGCCCGTTTACTTGGCATCACTCACGTTGGGGTACTTGTATGATCACGGCCATCTCTCACGCGCTGTTTGTTGTCGCCTTCAACACAACAGTGATCTCAACACGCAGCTGCCAGCTCCCTATCGCGTGAATCACCCGTGGCTCGGTCGTGTTACGGCCTACGATCCGCCACGCGAGACAGAAAAGACAAACAACCTTAGCGTCAATTGGTCCACTGGGGACGCGTGCACCGAAGTGACCGATGGACGCACCGGAGCGTGCATGACGCGAACAAATAACAGCCCCACGCCCTCGCGGATCTGCAAGGCCGCCCTTTATGCGTCGTTCAAGGAGATTGGTGCCAAAGCTGGCCGTGAAGAACTCGCGAATGTCGAAACTTACTGCGAAGCAAAGAAGATGGCGTCCGAGTTccaagaagttaaacgtaagctgTTCGAGTATTTCAAGTCCTCGAGGTACGGTCCGTGGGTCAGTAAACCAATGGAACAGGAAATGTTCTAA

Transcript

FUN_037460-T1

GTGTAAGCACTTTCACTTTCGGAAATGACCTCGTGTACGCAACAATAGGGACCTTCGCTTGTGAAACTGCAAGGAAAGTTACGGAAGGACATGCCATGGCTTTACAAAGCTCTGAGGGTTTGCCAGTTCTGTTAAGATCCTTTCCTCAGCTGACTTTGacgaaaacgaaaaactGTACCTCACCAATGAGTAACGATGTCAAAGAACACAAGGACGCCAGAATATCATCAAAGAAAGGAGAGGGAGAGCATAGCCAAGGATCTGGTGAAATGCAATCAAGCCAAGCGGAAACAAAGACAAAGCCACAGTCTAGTGCACAAGATGAAGGAACTAAGACGAATTCACTTTTGAGTGAAACTCTTGAAAACCAAATTCTTACAACTGTGCGAAATATGCCACATCCTTGTACATTAAGTGATATTCTGCACAATGTCACCAACTCCGCTAACGAAAGAAGTGTGATTGAGTGTATCAACGAACTAGAGGGAACAAAGAAGATTATTAGAATTCTGGAAATGCCTCCAATGTGGAGAATTGCAGAGACAACAGAAGACATTAAAGGAGAAGTTGTTGGATCAGTACCTCAATTGGAGACTCTGGTGCCTGCTTATGAATCAGATAAGAGTGAAGAGGAAGCACAAGCAGAGGTCATTAATGACACCAAAAGTTCGTGTTTCAAAGATGAAGACACATCTGTAGATGAGAAAGCAGATGCAGTTGATGGAGATATAAACCAAGGCTTTGCAAGCCCACAAAGCCAAGAAAGTGTCAATGCATCTGGTGAGCCATCATTGTCAGCAAATCAGGCATTGTCGCCCAGTAACCCAGGCAGTTATGATGACAGTTCAGGCCCATCTAGCTTGCCCGATTTATCTGGTGAAGAATTCTCTAGCGGTATTGATTCTGGCAAATCCCCTGCATCACCATTTCATCAGCGTGAATCTCTTCCTCCAACACGCAATCATGGAAGACTGGTCCAACCTGGTCCATCCCCAGTTGCTCCTTCCTTAATCCCTGGGGGGCCAGTGCGATCATCAGGAGGCCCCCCTCCACCTCCCTCGGCTCATCTCTTCAGCACCTTGATGTCCCAGTGTGCCAGAAAACCTGCCCCAGTTGTCATGGCAGCAAGGCCTACCTTTTCACCCTTGAGTCTAAACCAGCAACCTTCTAGGATTGCACCACCTCGTCCACTGATGCAGTCATTTGTTCCTCGACCAACTCGACCTCAGATGCCAGCGCCTCGATTACCTTCCAACTCCTTAATGAATCGTGAAACATCCACGTTTACAAATTCTAATCCAAGCAGGCAGATGTCATCACTACCTGGTTCTGTTgaccaaaattattttcaacaaaaccaTTGTTCTAACAGAGACGAGCATAAAGAAATAACTGTCGCTAGTGGAGCTGTAATTGCCCATAACCAGTCAAGCCTGGAAAACTTCAAAGCACGAGAGCAGTTACAAGCGCATCATTCTCATCCTCCTCCTTATGGATATGGATCGATTCCAACAGATAACGCACAGGTCACACATTCAACAGTTCCTAACTTTCGTCAAAGCTCGTCAGATAACTCCTCCAAGCAAGCTACTTCCAGACTTCCACCCCCTCCCTCGGCACATCTCTTTCGAAACTTGGTCAGTCGAGGTCCCCAAGCGGTGTCCACGTCGAGCAAGAGTCCACTGACCCGTGTGCCTCAGCAAGCTTCAAGGTTAAGTGATCTTGAAGCAAATGTGCTGGACTTTATGAAGAGAGAAAGGAAATCATGTGAAACACTACAGCTGGCCAGGCAGTTTGGTTTTCATAGGAAGAAGGAGATCAATCCAATTCTCTATAAACTGCAGATGTTAGGCTTGATTTACAAAATGCATGAACATCCTCCGACGTGGAAGGTGCGACAAGAAGTGAGCTCGCTGACGTTCCAAGGTTCAAGAGCTGCTGAGTCCACTTCTGTCGAGCTTCCCCAGAAAAGAACTTACCCTGATGCTGCTGATGAACAAGGACAAGTGCATCCAGGTGTGAAGAAACCCTTTCATCAGGTGCAGACACCTCCTACACCCTCTGGGGTCGGATTGAGTCTGTTTGGACCAACACAGAATGCTCCTACCATGCCGAGCTACATGTCCACCCCACAGCTACCACCTGCAACCTTAGGTACCCCTCCAGGGTCCAGCAACAGTCTTCCAGATGTACTTTCCAGTGTCGCTTATGCCGCAATTAACAAGAACCCTGTCAGTGCCCTTAACGAGTACGTGCAGAAAAACAAGATGAAGCTGACATTTGAAACAATCAGCCAAGGACGCGCCTTTGCAGTTGCCGCCAAGATCAACGGCAAGCTATTCCCTGCAGCAGAAGCACGAAACATCAAAGATGCCAGACGCGAGGCAGCGGATGTTGCTTTGAGAACCCTGCTTGGTCGGGGTGCCAATGCAGGTGCCGAGGAAGGGTCTCCTTTGAACATAACTGGCCCACCTGCAAACATTTTGAGCAAAGTCCGCACACACTTCGATCTCATAGCTGCGCTGTCGCATCACACATTTCTCCAAATCGCAGCCTCCATTTCCGACAAGTTCGCCGGGAGAAAGGTCGTGGCATGTATCATCATGAAAACAGGCGTCGACGACTCTGGCCGAGTTGTTGCCGTGGGAACTGGTAACCGTTGTGTGACTGGTCAGCGGTTGAGCATGGAGGGAAAGGTGGTAAATGACTCTCATGCTGAAATTGTAGCTCGGAGATCTCTGTTGCGGTTCTTCTACAGACAATTAAGCAGTTACTACGATGGAGATGAATCCATTTTCGCACCGAGAGAGGGCTCTCAGAGACTCGTTGTTCGCCAGAATGTGACATTTCATCTGTACATCAGTACAGCGCCTTGTGGAGATGGAGCCTTGTTCACTCCCCGCGAGGAACCCAACACGGACATGTCGGAACACTCAACACAGCATAATCCTACATTCACGACCAAACAACAGGGCATCTTAAGGACCAAGATCGAAGACGGTGAAGGCACGATTCCCATTGACCCCTCCGATGGTATTCAAACATGGGATGGGCTCTTACTTGGCAACAGATTACGCACCATGTCGTGCAGTGATAAGATATGCCGCTGGAACGTTCTTGGACTTCAAGGCGCTCTCTTGACTCACTTCATCGAGCCCGTTTACTTGGCATCACTCACGTTGGGGTACTTGTATGATCACGGCCATCTCTCACGCGCTGTTTGTTGTCGCCTTCAACACAACAGTGATCTCAACACGCAGCTGCCAGCTCCCTATCGCGTGAATCACCCGTGGCTCGGTCGTGTTACGGCCTACGATCCGCCACGCGAGACAGAAAAGACAAACAACCTTAGCGTCAATTGGTCCACTGGGGACGCGTGCACCGAAGTGACCGATGGACGCACCGGAGCGTGCATGACGCGAACAAATAACAGCCCCACGCCCTCGCGGATCTGCAAGGCCGCCCTTTATGCGTCGTTCAAGGAGATTGGTGCCAAAGCTGGCCGTGAAGAACTCGCGAATGTCGAAACTTACTGCGAAGCAAAGAAGATGGCGTCCGAGTTccaagaagttaaacgtaagctgTTCGAGTATTTCAAGTCCTCGAGGTACGGTCCGTGGGTCAGTAAACCAATGGAACAGGAAATGTTCTAACTGAAAAGGGTATTGTACTTCGGTATCAGCTGACGTTGTTTCTGAGCTCACAGACAATGGAATTTGTGTAAGAACAGACTTGGAGTTTATTGAgctagaaaaaacaaaacaaaaacatacacTCTGTCTATTAAATGTTGACTATGAAAACGTTTGGTTCAGCTATTCTTTTCATAAGCACTTCAACGTGTAtgtttaaatttattaaaaaccaATACTGACAACACAGCTTTCCATACAAGAAAgactttgtaaaattatgtattaATTATAATATATACTACAAAATAACATCAAGAGCTGTGGAAAACGAGATGTTTGAGTTCGTAGAAAATTGAAATTGTAAGATAACTAACTGATGGTTATAATCTGATACCAAAAAACGgtaaaatttgtttatatgcTTTACGTTCACTAAATATGGACGTTTCTGTTTACAAGCAGTTAATATGTTTATGTTTGAATTTCTCAAAGTACAGTACTAAAATGCAGCATTAGCTTTTAGTATTGAAGGTCTGTAAAGTTACCATCGAGGTTTTTTTGTACA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P55265	Double-stranded RNA-specific adenosine deaminase OS=Homo sapiens OX=9606 GN=ADAR PE=1 SV=4
Q99MU3	Double-stranded RNA-specific adenosine deaminase OS=Mus musculus OX=10090 GN=Adar PE=1 SV=2
P55266	Double-stranded RNA-specific adenosine deaminase OS=Rattus norvegicus OX=10116 GN=Adar PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001387 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00035 all species →	dsrm	Double-stranded RNA binding motif	Domain	Interproscan
PF02295 all species →	z-alpha	Adenosine deaminase z-alpha domain	Domain	Interproscan
PF02137 all species →	A_deamin	Adenosine-deaminase (editase) domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002466 all species →	Domain	Adenosine deaminase/editase	Interproscan
IPR042371 all species →	Domain	Z-binding domain	Interproscan
IPR014720 all species →	Domain	Double-stranded RNA-binding domain	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10910 all species →	EUKARYOTE SPECIFIC DSRNA BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004000 all species →	Molecular Function	adenosine deaminase activity	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0003726 all species →	Molecular Function	double-stranded RNA adenosine deaminase activity	Interproscan
GO:0003725 all species →	Molecular Function	double-stranded RNA binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006382 all species →	Biological Process	adenosine to inosine editing	Interproscan
GO:0008251 all species →	Molecular Function	tRNA-specific adenosine deaminase activity	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

No KEGG orthology assignment for FUN_037460-T1.

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 Dendrogyra cylindrus 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 Dendrogyra cylindrus, 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 →