Gene detail

Detailed information of BRAKERMNPP00000004804.1 in Nemopilema nomurai

Genomic Location: scaffold2:2700770...2719387
NR annotation: XP_001638123.3, disks large homolog 1 isoform X1 [Nematostella vectensis]
Species Nemopilema nomurai · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERMNPT00000004804

ATGATCAATCGTATTTTTGATTTGGAGGGAGCACTTTTCGGCCTTATAGGCACAATTGGGTTTGGAATGGGAGAAATATCACATACTCGTGCTGCAGATGCAGACAGAGCTCTGAGGTTATTGGAAATATATCACAACAAGCTCAGTTCACCTGAAGATGTTGCACTTCAAAATGCTATTGAAAGAGTAATCAAGCTTTTCAGGAGTAAGCTGTTCTTTGCACTTATTGATATCCAAGAGTACTATGAAGAGATATTGCAAGGTGTTGTTCGGTCTCCTGAGCAGGTTGCTCAAGAAGCAGTTGTGATTGCAAGGAAGTGGGAAAGGCAACCAGCTCCTGCATCTCAATTTTCTGATGAAGTGTCAGATGAGCCCTTGCCCCCACCCCCAGAAGATATCAAGCCTCCAGAGGATGAACCTTTGCCAGAAGCCAACGCTGTAGTCACTAGTGAAGGTGCAAGGACCGATGAGCTATACGAAGAAGAGGAAATAAGATTGAGGCGGGGTGGAACTGGTCTTGGCTTCAGCATTGCCGGGGGAACGGACAACCCTCATATTGATGACGACACAGGAATCTACATTACCAAGATCATACCGGGGGGTGCCGCACACCAAGATGGCCGCCTACGAATTGGCGACAGCATCCTTCAAGTCAATGATGTGACGACGGTCGATGTGGAGCACTCTGTTGCTGTGGAGGCGCTCAAACTAGCTGGAGATGAAGTTTTCCTGAAAGTGAAGAGGCAGAAGATGCAGCTTTCATCGGTGCAGCAAGTGGAGATCACGCTGCACAAGGGCGCTACCGGCCTAGGCTTTACGATTGCTGGCGGCAGAGACAACCAACACATCCCCGAGGACAATGGTGTGTATGTGACGCGGATCATTCCAGGTGGCGCTGCGCAGCAGGATGGAAGGCTTCAAGTTGGGGATAAAATTTTGCAGGTGGATGGCAACGACCTCAGTGACATAACTCACGAGGATGCTGTGACTGTATTAAAATCAACTGGCCAAACAGTAAACTTGGTCGTTTCCAGGGGGGTTCTTTTGGACGACACGTTGGCCAGCACCCCGTCGCCGTCATTTGGCGCCAAAATAAGcgaagaaaacgagattagcAGCGCGCCAGTTGTCATATCCCAAGAGGAAGTAAGCAGCCAGGATATTGTTCTACTGAATCCCCCATTGTTGGACCAAAGCAAAGAGGACATTGAGGCTGAACAAGTCAGTAGGGAGCAGCGCACCGTGGTGTTGATACGAGGCCCATCTGGCCTCGGCTTCAATATTGTCGGGGGTGAGGATGGCGAGGGCATTTTCATCTCCTTCATCCTTGCCGGAGCCCCGGCAGATCTTAGTGGCAATTTGAGAAGAGGGGATCAGATCGTTTCGGTTAACAACACAGACCTACGCGCAGCGACCCACGAGCAGGCTGCGCAGGCGCTGAAAAGCGCGGGAAGAGAAGTGACGCTTGTCGTCCAATACCGCCCTGAAGAGTATAACAGGTTTGAGCAGAAGATTCACGACCTGCGAGAAAGGATGTTAAACACAACGGGCGGTGGCAGTTTAAAGACATCTGCAAAGAGGACCCTTTACGTCAGGGCCTTGTTTGATTACGACAAGACTAAGGACAGCGCCTTGCCAAGCCAGGGCCTAAGTTTCGGCTACGGCGACATACTTCATGTTACGAATGCAAGCGACGAGGAATGGTGGCAGGCCGTCAAGCTAAATAGCGAGGGAGGCGAAGAGGAGCGGGGTGTTATCCCAAGCAAAAAGAGAGTTGAGAGAAGAGAAAGAGCTCGACAGAAGACAGTCAAGTTCAAAGCTGCGGCAGCCGGAAATGAAGACAAGGGGACATCCTTTTCGGCCAAACACGGTAAGCGTAGTTTCAACTTCGCcaaacattttcctttcaagaaCAAGAAAGAGATGGACGGGGAGGGAGCTGATGCTGACGCCACTTCGAATGCGAGCGATAGCGAGGCTGGCGGTCGCGCCGAAGACACTATTCTCACGTACGAATCGGTCGCACAGCAGGAGCTGAAGTATACCAGGCCAGTCATTATTCTCGGGCCCTTGAAGGACAGATTGAACGACGAGCTGATACAAGAGTTCCCTGACAAGTTTGGAAGCTGTGTCCCGCACACAACGAGACCAAGGCGGGAGTACGAGACGGATGGAAGAGACTACCATTTTGTCGAATCTCGAGAGCAAATGGAAAAAGATATTCAGAACCATCTCTTTATTGAAGCTGGTCAGTATAACGAAAATCTCTATGGCACAAGTGTGAATTCAGTGCGAGAAGTCGCGGAAAAGGACAAACACTGCATACTTGATGTGAGTGGTTATGCAATTAAGCGACTGCAGGTTGCCCAGCTCTATCCAGTAGCGATTTTCATTAAGCCGTTGAATCCGGAGTGGATGATGGAAATCAATAAACGGCTAACCACCGATCAGGCTCAGAAACAGTACGAAAGAGCCTTGAAATTAGAACACGAGTTTGGGGAATTTTTCACTGCAATCATCAGTGGAGAGACGTACGACGAGGTGTATTCATCCGTGAAAATGGTCATTCGTCAACAGTCCGGTCCGGCTGTCTGGATTCCCACCCGGGACAAGTTATGA

Transcript

BRAKERMNPT00000004804

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0A8C0TYJ0	Disks large homolog 1 OS=Canis lupus familiaris OX=9615 GN=DLG1 PE=3 SV=1
Q28C55	Disks large homolog 1 OS=Xenopus tropicalis OX=8364 GN=dlg1 PE=2 SV=1
Q811D0	Disks large homolog 1 OS=Mus musculus OX=10090 GN=Dlg1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002637 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF09058 all species →	L27_1	L27_1	Domain	Interproscan
PF00625 all species →	Guanylate_kin	Guanylate kinase	Domain	Interproscan
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020590 all species →	Conserved_site	Guanylate kinase, conserved site	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR008144 all species →	Domain	Guanylate kinase-like domain	Interproscan
IPR015143 all species →	Domain	L27-1	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR008145 all species →	Domain	Guanylate kinase/L-type calcium channel beta subunit	Interproscan
IPR016313 all species →	Family	Disks large 1-like	Interproscan
IPR036892 all species →	Homologous_superfamily	L27 domain superfamily	Interproscan
IPR004172 all species →	Domain	L27 domain	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR050614 all species →	Family	Synaptic Scaffolding LAP/MAGUK Families	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23119 all species →	DISCS LARGE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007268 all species →	Biological Process	chemical synaptic transmission	Interproscan
GO:0019900 all species →	Molecular Function	kinase binding	Interproscan
GO:0031594 all species →	Cellular Component	neuromuscular junction	Interproscan
GO:0043005 all species →	Cellular Component	neuron projection	Interproscan
GO:0009790 all species →	Biological Process	embryo development	Interproscan
GO:0016323 all species →	Cellular Component	basolateral plasma membrane	Interproscan
GO:0030054 all species →	Cellular Component	cell junction	Interproscan
GO:0043113 all species →	Biological Process	receptor clustering	Interproscan
GO:0045197 all species →	Biological Process	establishment or maintenance of epithelial cell apical/basal polarity	Interproscan
GO:0097120 all species →	Biological Process	receptor localization to synapse	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	Interproscan
GO:0098839 all species →	Cellular Component	postsynaptic density membrane	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
K12076	DLG1; disks large protein 1	-	Chromosome and associated proteins	ko03036	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 Nemopilema nomurai 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 Nemopilema nomurai, 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 →