Gene detail

Detailed information of BRAKERMNPP00000004140.1 in Nemopilema nomurai

Genomic Location: scaffold25:2047061...2061416
NR annotation: XP_047124731.1, unconventional myosin-IXa isoform X2 [Hydra vulgaris]
Species Nemopilema nomurai · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERMNPT00000004140

ATGGGATTAGCACGCCACTGTGAAGAGGTTTACACTTGGAAACGCCAAGAAGTATCCATCTCTTCTCGAGTGAACAATGTTGCTAGGACTCGAAACCTCTGGGTGCCTACTTTCAGGAAGTTGTATGGGCTGCAAAAAGAGAGAGGTCGGCAACAGTCGCCATCAGAGCTGTTGCTTCCACTACGCGTCGTGCACGTGCAGAGACTAGCATACGTTTCGTCAGCTCCACTGCCAACCATGGTGATTGCTTGGGCTGGCACCACTAGAGTGGATTACTGTCGCAGTGCTGTTGTTCTTATCAAGAGTTTGTACGAGATTGGCAGAAAGGATTTTGTGAGACAGTATCGGAACCTACTGCCAAAAGGGGACCTCACATCCAACGATGAAGTGCCCCTTTGTTTACAGAGCCTGGGTCTGGACCCAAACCACTACCAAGTCGGCAAGAACAAGGTGTTCATGAGGGAGAGCCAGTACAAAATTCTCCGTGAGAAGTTGCAGAGCAAGTTGGACAATGCGGCCAAAACCATCCAGCGATGGGTACGGGCCAAGTTGGAACGGAAGAAGTTCCTACAGATTCGAAAAGCAGCAATTACAATCCAGgcCAAATGGCGCTCTTACGTCGTCAGCAAAAAGCTGCTGGCCCTGCAAAAGAGGCTGGCTGTTAAACGCATCGAGGACGCGTGGCTGGTGTACCTGGGAACGAGGAAGATGCGCAGCGTCAGATTGATCCAGTCAAACTGGAGAGGGTACGTCGCGCGAAGAAGGTACAAAAGTttggagaaagaaagaagcaaacaaaAGGAGGAAATGAGTCAGAGTGACTCCTCGTTCGATTCCACGTGGCACGCCGGGAAGGCCGCTTGTTTGAGCTGCACGTGCCCTCTTCTGACGCGGAGGAGGAAGAAGTTCAAGGTCATCGTCGACGTAGTTCGCCGTAGCTCTTTCAGCTCGAAGTACGTCTTGCGAAGCAGTTCGTTTCGAAGCGATTCGTTTCGAGCCGGTAGCGAAAAGTCGAAACTGCGCCTCAAAACTGTCGATATCATGAGAAGCAGCTCGTTGCGAAGTCAGGCGGAAATTAATCTTCGACGGCGCATGGATGTCGTACGGAAGGACTCGTTTCGACTTTGGAATGAAGTTGCGAAAAAGAGAAAACTCTTCAAGAAGAAAAAGGCAGAAGAGAAAGCCcaagagaaaaaggaagaggaaTCGAAAAATGTCACCAAAGAAGAACGCGATGAAATGAAGAACAGAGCTGGTAGCCTACCGTTCATTGAAACAAGAGTGGATATCGGAATACCAGAGCCGGCCGCATTGAAGAGTAAAGCTTTGTCTACAGGAAACCTAGGCTTTGCGCAGAACTCGCACTTGTACGAAAGGCTAGTCGATGTTCAAAGGGAGCTGAACATTAACAACGAAGATAGTTTTGTCTCTGAGAGGGCCAGTGGTATTTACGACGAGATTGAAGAATTCCCAACCAAGGAAAGAACCATGTCAACAGAATCCAACGAATCCAACTCTTCCACCGGCAAAAAGCGTTCGCGGGAACGTGCCCAAAAGGAGGCTGTGAAGTCGAATGTGGAGCGAAGGCGGTCATTTTTCCGGGAGAAGCACGCGGTCACTCCGAAGACTTCATTGGGTCCGGTAACTTCTGTTGGCTTTGCAATTGTGACACCGCGTGATTCGATTCCAGCGAGACCGGACTACAAAGACGCGCTGCCGGTCAATGAGAATAAGAGCTCTTTACTTAAGATGGTTCGTCATTTGACAAACAGGAACAAAACAATCAAGCGAGCCGCGCCACAGAAGCCCAAGACACAAAGTCCAATGTCATCCGGAGGCAAAGAGTGGAAGCCAACCAAAGAATTTGTCGTAGATGGTGATGCCGACTTCAAAGCATTCAATGACTTCCTTTTCAAAAGGATTGGAGACATGGATCCCACGCACAAAGGAGAAGACACCATGGCTGTTGTGCTGTTCACGAAAGCTCTGAACACCTTCCACTCCAATATCCTCAACATTTATGCAGTTAGCAAAAAAAACAATCAAACAATTCAGCTTCGTTATGAAGAGATGTCAGCCTCGTTTGCAAACGTCCTGGAACTTGAAGCCGAGAAATCGAAGGAGAAGTTACCTAAGGACCTAGGAATGAACCTTTTCGGGAGCATTGTGGACGATTTTGTAAAGCACAATGCCAATTCAAGTAAGAAAGAAAAGACTTGGCGCCGAGCTGGAGGAGGGAAAAAGCAAGCCAAACACCACGAAGAGTTTACGATTCACAATGGTCACAAGTACTACATGACAAGCTTCAGTATCGTCACCTTCTGCGAATACTGCAATTCTTACATTTGGGAAAGAGGATTTGTGTGCCAAGGCTGCAAATTCACTTGTCACAAAAAATGCTCCAGCAGGTGTAACACTCCTTGCCCTGGAAAGTCCTCAGATAACGGTGGACCAAAGTCGattttcGGTGCTAAGCTTCAGGAGATCTCGACAGATGAAAATCCGATTCCCAAAGCCATAGAAGATTTAATgcatgaaattgaaaatacaggatTGTACACTGAGGGGATATACCGAAAGCCGGGATTGCAAACGCATGTCAAGTCATTGAAGAATGCCATCTCTCCACCCGACTACACTTCCGTAGACTTTTCACAATACCGTGTGCACGTGATCGCATCCGCTCTAAAGCTGTTTTTTCGCCAGTTGGCTGATCCACTCGTCCCCAGGGAATTCTACGATGACTTCATAAGAGCGACAGAACTCCCAAGTGACACGGAAATCCAAACGCGTCTTTGTGAAATCATCTTCAGGTTTCCGAAGCCGAATCAAGAGCTCATAACGAGGCTCATTTACCATCTCGCACAAGTAGCGATGCTGGAAGAGTCAAACAAAATGTCACCGAATGGTTTGTCAATCATCTGGGCGCCCTGTATCATGCGATCGAGCGAAGACATGGACCCTATGGATGCCCTGCGGCAACTGCCTCTACAGACAAGGTGCTTGGAAATTCTGATCTCGAGAAAGGCAGCAAACATTCGCCGCACGCTGGCAGATATTGAAACTTTGGAGCAAGCCAAGCTCACTTCAGAGTCAGCATTGAACAGCTTCCACGAGACCAACAGTGACTCAGAAGAGAACCGAAGACATTTTTTGAAAGAGCAGATTGACAAAATGGACAGTGAAAGGGAGCGACTGACGGAAAATCTTCCCAACCTTGAGCGAATTGATTCACGTGGAGATTTACGGATCGATTCGGACGACGGAATTACTTCGGACGATGGGATGACAGACAATGATGACCCAATGTCATTCTCAATCGAAGTATCAGTTACAACAACGCCACTGCAGGATCCTCCACGGGGAAAGAGGCAAAAGAACACGGCATTGCGAAAGAGAGCCAACGAACTAGCTCCAAGAGATGACACTCTTTCTCCGGATTCTTCTTTTGAAGATCTATCGGCTGAGCTTGGTGACGTTCCCTTATAG

Transcript

BRAKERMNPT00000004140

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
E7F3F0	Unconventional myosin-IXAb OS=Danio rerio OX=7955 GN=myo9ab PE=3 SV=3
E7EZG2	Unconventional myosin-IXAa OS=Danio rerio OX=7955 GN=myo9aa PE=3 SV=1
B2RTY4	Unconventional myosin-IXa OS=Homo sapiens OX=9606 GN=MYO9A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001982 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan
PF00130 all species →	C1_1	Phorbol esters/diacylglycerol binding domain (C1 domain)	Domain	Interproscan
PF00612 all species →	IQ	IQ calmodulin-binding motif	Motif	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR002219 all species →	Domain	Protein kinase C-like, phorbol ester/diacylglycerol-binding domain	Interproscan
IPR046987 all species →	Family	Unconventional class IX myosin	Interproscan
IPR046349 all species →	Homologous_superfamily	C1-like domain superfamily	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR000048 all species →	Binding_site	IQ motif, EF-hand binding site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46184 all species →	UNCONVENTIONAL MYOSIN-IXB-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0000146 all species →	Molecular Function	microfilament motor activity	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005884 all species →	Cellular Component	actin filament	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for BRAKERMNPP00000004140.1.

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 →