Gene detail

Detailed information of anas_s0036.g120.t1 in Acropora nasuta

Genomic Location: sc0000036_pilon:1757774...1764078
NR annotation: XP_029196953.2, LOW QUALITY PROTEIN: postreplication repair E3 ubiquitin-protein ligase rad18-like [Acropora millepora]
Species Acropora nasuta · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

anas_s0036.g120.t1

CTATCGGAATTGCGGACGATCGACAATCTTTTAAGATGTTCTATTTGCTATGAATATTTTGATGTTGCAATGATCGTTCCTGATTGCTCTCATAATTATTGTTCATTATGTATCAGAAGATCTCTCAGCTATGAACCTCGATGTCCAACTTGCAACATGAAATTAAATCCACCAAGCTTAAAAAGTAACAGAGTATTAGATGAACTTGTAAAAAGCTTTGTGAAAGTAAGGGAAAAGTTGTTAGATTTAGTAACCAAAGGAACGCAGACATCAAGTGAAATAAGCAGCCACAAAAAGGAAGGTGATGTCAGGGATAAAAACATTGTAACAAGTAGCAAAAGAAGAAAGATTAGTCACAGGAGACCAAAAAGCAGCCCAAAGTCATCAAGTCCAGGAACAAAAAGACAGAAACTTGATGATACTGAGAAGGAAGCTACAACTCCAGAGAACAGCGGCTCGAGCACTGCTCAGTCTCTTCCTACAGAATCTGCAGTTGAAACTGAAGTCTGCAATAGTGAACAGTTGCATCCGACCTCTGAACACGAACCAATGGTCATAGATGAAGGCAACACGGAAAACAAGGCTACAGTGGCATCTGCAGATCCAGGCTTTGCTGAGTGCCCAGTTTGTGGTGACATGATCCCACACAGGAAAATCAATTCACACCTTGATTCATGTCTTACAAGAACAGAAAAGAAAAACGCCTTGAGAAGCAAGAAAACCAGTGCAGCAAGGAGTTTATGCAGTACGTTGACCAAAAAGAAACATCTTACATCTGTGGAGTCTAAAGAGTATGAAGTAGCTTGTATTTTATCCAGCGATGATGATGTGCCTTCTACTAAAGCAACACAAGAACCATGTTCCTCAAAGGACTCTTCCAGTCTAACAACAAAAGGCTCCAATGCTCTCATTCAGACAGTACAGAAAAGAAAACCACTTCCAAAGCTGGTCTACAGTGTAATGCCAGAGAAAGAGTTACGGCACAGACTAAAGGAATGGAATTTGTCAACAAAGGGAGATAAAGCAACCCTTGTGAAAAGACATCAAGATTTTGTTATGCTATACAATTCTCAATGTGATGCTGCCAAGCCAATGACAGCTGCCCAAATTGCCAGAGAAGTTGAAAAAGCAGAGAAAACTCGAATGAAGGAATGTTTGTCTCGTACAGAAGCATCCACATCTGGTCTACGATTTGACAAGAACCAAACTGAAGAAGACATGGACAAAATACGTCAAGAGTATTTGAAGGAAAATCAAAACGAATTTAGCAAACTCATTTCTGATGTACAAAGAAGGCAGAAAGGCAACAGAAACACAACTGCTAGAAAGAGTTCAGCAACTGAAATCATGAATTCAACATCAAATAACCCTGGAGAAAATGCAATGAACACAGACAGTAAGGATATTTACACTGACCACACAGAAGGGAATAATTCTCCAGCGGAAATCAAAATATCAGAAAACTTACCCTCTGAGAGATGTACTGGTGCGGAAACACAGCCGCAGTGTATACAGCTAAATAGCAATGAGTTGTCATTAACTTGTGGGCAGTCTGAAATTCAAGCTTCAGTTATTCCAGAGCCTCCTTCGTCTCCAATCCTGCTACCATTGTCAGATGATGATCAAGAGTCGACACCCTCACTAGGCCTtggtgacgctgattataatgatgatgatgatgaGCTCAAGGACTGTGAAGGAGAAGAGTTGGAAAATCCAAATGTTATTGCAGAGAGTCCTGTCATCAAAGTTGGTAAAGCAGCTGACAGAAATCCAAACAAAGAAACAATGTCAAGTGACAGTGATGATGACTAAAGTTATCAGGGAGCTACAAGCTCTTTTTAAAAAGACTCATTATGAGAACAATAACTATTAATAACTACAATATCGTACATGTAGCTTAGAAGGTACAATGGATAAGCTGTATATTCAAACTGGAAGAGAAAACGTCATAGTAAAATGCAATGTACTCATTTCTCATTAAATGTAGGCTTGAGGATGAAGTTCCAGTAATCATTCCTTCATTCAAAAAAATTAATAGTGATGGATGACCTTCCATGCACTATGGAAGCAGACCTGTAAGATTGTGGGAAAATGTATGACAACCACAATATTAAAATAAACAGAACACCTGGTAAAGGCAATTTGATAAGACACGAAAAATTTGCTAATTTCCCCAAATAGAAAATAACAGGCATTACTCTAAGAGGCTGGTTGCTGCAACAAGCTAAAAACCATCAAAACAGCAAACATTATTGGTTTCCCTCTTGAGTTTAGTTATAAATAAAATTATTTTAATCTTCTCATCTGGGTGTATGGTAGCTGTAATAATATTATGTTTACTTCAAATTAAAGGAACCAGGTTGTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9NS91	E3 ubiquitin-protein ligase RAD18 OS=Homo sapiens OX=9606 GN=RAD18 PE=1 SV=2
Q9QXK2	E3 ubiquitin-protein ligase RAD18 OS=Mus musculus OX=10090 GN=Rad18 PE=1 SV=2
Q4WZJ6	Postreplication repair E3 ubiquitin-protein ligase rad18 OS=Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) OX=330879 GN=rad18 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004614 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|ZnF\|UBZ · all ubiquitin genes in this species

Pfam domain

No Pfam domain signature was recorded for anas_s0036.g120.t1 in Acropora nasuta.

InterPro

InterPro term	Type	Description	Source
IPR003034 all species →	Domain	SAP domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR039577 all species →	Family	E3 ubiquitin-protein ligase Rad18	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan
IPR006642 all species →	Domain	Rad18, zinc finger UBZ4-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14134 all species →	E3 UBIQUITIN-PROTEIN LIGASE RAD18	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006301 all species →	Biological Process	postreplication repair	Interproscan
GO:0006513 all species →	Biological Process	protein monoubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0097505 all species →	Cellular Component	Rad6-Rad18 complex	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	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
K10627	RAD18; E3 ubiquitin-protein ligase RAD18	EC:2.3.2.27	DNA repair and recombination proteins	ko03400	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 nasuta 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 nasuta, 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 →