Gene detail

Detailed information of BRAKERMNPP00000002299.1 in Nemopilema nomurai

Genomic Location: scaffold1:3342866...3374068
NR annotation: XP_028393554.1, acetolactate synthase-like protein [Dendronephthya gigantea]
Species Nemopilema nomurai · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERMNPT00000002299

ATGCCTGAAATTAAATCGGTCGAAATTCATAGGTCGCCCACCAAAGGATTTGGGTTCAGTATAATAGGTGGCTCAAATACCCACCTTCCACCCATGATTTGTGCTTTGGTTAGCGAAGGTCCAGCAGCAAGTTCAGGGAAGgTTGGAATTGGGGACATCGTCGAGAAGGTTAACGGAATCAACGCAAGAGAGCTGCCCACCCGATCAAATCCCGAGACGAAAGCTTCCGCAAGACGATTCCTTACATttaacacaacacaacaacCGCAAACAGAGAGCCATGACTTATGCACTGCGTCGCCTGGGAGGAGCCTAGGGAATAAAACGTTTGCTTCTGGCAGCAGTTCAAAGGTTTTCGCACAAACTCCGTCAGATAGTGCAGGGAAGGTAGTTAGTAAAAGCGCATCACCATGTTATAACCGGACAGTTGGAAGTCCGGATTACGAAATATTTGGAGCGGACGGGCGGTTCACTAAGGCCGGTTCTCTAGCTAGGACACCGGCTCATTTTGAATTCGAAGGGAAGGAATCCAGTGTGAGGCTGGAACCTGAGGTGCCGGAATCAGATCCCAAACAACTGTCTTTGCAGCCAGCGAATTTATCGACGGGCAAAGAGGAATCTTCGCCGCACGCAATTGCCTTGCAAACGAGCAGCGGAGAAGAATCTTCTAGAAGCAGACACGAGTCTTCGAATGGTACTTCTATCGTTAAGCTTGCCGATGTCAATCGCTTCTTTTCGCTCGACGATTTGTACATCGCAGGTGATATTAAACAAGAGAACCGGTTGAGTAAGCCACTTTTCGGCTCAGCCCCGCGAATCAGTTCTCAATCACGTGACAGAAACATGAAGCAGAACCATGGCCCCCGCAACGTGCCAAATGTCATTGTTAGGCCATCGCTGCATCGCCGAAGCGCTTCACACGACGAACAAACTTGGAGCCACCTCCAAAGGCAAACAGATTTCCGGAGGCCGGTCTATAATACGGACGCTAATTTCTCGAGTGTTCCGCGCGGGATGCGAACCGGCCCAACAGTCAGGTTTGAAGATGCGACCAATCAGAAGCGAGCTAATCAATCTTGGTCATCCTGTCAACCGAAGGATCGAAGAGGGGGTGCCCCATTGGCTAATGGAAATACCCCAAATGCCCCCTATGGCAGCAGCAAACCGACCAATAATGCGCAGGATCTAAGGAATGCCTTCATCAAGCATCAGGTTGCTCTGCGGAACCAGAAACTGGCCGGATTTTCACAACGGCGGTATAACAGTAGCGAAGAGCTACCGAGTCAGGACCATTTGAATCAGTTCCTGTACCAACACAGCCAGGTGCCAAATACCAGAGGATTGGCGGCAGGAAAGGAACTCGGTACAAAGCCGGCCGGTAACTTTGAGTATGAAGACGAAGATGATGACGACATGCAAAAAAGTGGTTATGGTGCGGGATTCAAACGGACCAACTCGCTAGGCCGTGCGGACATGTATCAAAGATATTTCCGGAACCAGGACTTCTATTTTACAGACCGGACGCACGTCAGTCAATACAAAGATGTAGGCTATGCTCAGAATAATGAGGTTAAGCAACCGACTTCAATACCCCGGTTATCGCCTGCTTTGCAGCAAAGGTTGATGAATGTTACCTTGTCGAGTCCGGTCAGTTACGCCAACAGCCCGCAGGCGGTTGGAGTGCCAAAAAGAAATGGCGCTGGTTACGACCAGCCTCAACAAGTTTCAGACATCCGGATGGACAATGCAGCCCCGGGTCCAATATTTTCAAGCAGTCAAATGTATAACGCGAACCCGGGCCCGAAATATAACGAGCATTTCAGCATGTGCAACGGTGTTCCGATGCGAGACGAAGAAGACGGGGTCGTGCACAGTCGCTACGAGCAAGGGAAATCCCTCATCGTCCCCACCCAGCCATTTGGGGAGGACTACCTTGCGTCCTCTGGAGACGGCATGGGCTCCCAAAATAGAAACAGAGCCTCTCTTCCGTCTAGGATGTCAGTTGGCTCAAGGATCTCGGAAGCAAGCCAACCTGATATGATTTCTCCCTTGAAAGTCCCGAATGAGCTTAAGACTATTGATGCTACAGATCTTGCCACTAAACTATTCACTCTTGATGGTTTCTCCTCTAGCGACATTGCACCTCTTCTTGGAAAGAACACAGAGTTTAGTCAGCTTGTTTGCAGCGAATACATGAAATTCATGAACTTCGAGGGCTATTCTATCGATGAAGCTACAagGATACTTCTACAAAAGTTCCCTCTGACGGGTGAAACCCAAGAGCGCGAAAGAATACTGCTTCAGTTCTCGAAGCGATATCACGAATGTAACAAGCAATTGTATGGTTCCGAAGATGCGGTACACACCTTAACGTGCGCGTTAATGCTTCTGAACACAGATCTTCACGGACAGaaCATCGGGAACAAAATGACATTGAATGAGTTTATAAACAACCTCAGTGGGCTTTACGACGGTGAAGACTTTTCAAAGGAGCTCCTCAAGaCACTTTACCAGTCTATCAAGAATAAGGAAATCCTATATGCATTcaatgaAACTCCAAGAGAAATAAAGCCTTCTCCAAAGTCGAGAAAgCCGTCCTCCAATGGCAATCCTTTTATTGAGTTAAAAGCAGACGACGATGCCATCGTGATTCAGAATGGGATGCTGAACAGGAAATGCATTATGGACTCTGACGGAAGACGTTGCCCGCCACATAAACGTCGATGGAAAACTTATTACTGCGTCTTGAAAGGCCTAATACTTTTTCTTCGAAAGCACGATCGAGACCAGATTGATCAATCAATCGGTATACACCACTCACTCGCAGGCCCCGCAAAAGACTACAGGAAGCGgaactttgttttcaaactcatCACTGCAGATTGGAGGGTGTTCCTGTTCGAGGCAAAGAGTAAGGCTGATGTGCAAAGCTGGGTGGATGCTGTTAATCTAACTGCCGCTGCGCTCTCATCACCCCCGTTGCCTGCTCCTTGCTCTTCGAGCAAACAGTTTACCCGTCCTGTGATGCCAGTCTCTGTAACAAGACACCATTTGGAAGAGCAGATTAAACGGCACCAGGAAAGAGCGGAATCTGTTGACAAAGATATGCAGAATCACAGAGAAATGCAGCCGAGTGAAAGTTCAAAAGATTTCAAGGATTGGATAGACAAAATGGACTACTTGGAATTCGAGGTAGATGAGAGCTCAGAGCGACATGGTGGAGAACTTGTAGCTGAGGTACTCCAGTCCCATGGTGTGAAAAATGTCTTCACACTCTGTGGTGGTCACATTTCGCCCATCCTTGTTTCTTGTGAGGAAAGAGGAATCAAAGTCATTGATACAAGGCATGAGGTGAATGCAGTTTTTGCTGCTGATGCTGTTGCAAGGCTTTCTGGGACAGTTGGTGTCGCTGCAGTAACTGCTGGACCAGGTTTGACAAATACTGTGACAGCTGTGAAGAATGCTCAGATGGCTGAGTCGCCATTGCTGCTGATGGGTGGGGCTGCTGCAACACTCTTAAAGGGTAGAGGGGCTTTGCAAGATATTGACCAAATGTGTCTATTCAAACCATTGTGCAAATATACAGCAACAATCAAAAGGGTTGCAGACATCATACCCACGCTCAAGAAGGCATTACAGGCAGCTCAATCTGGAACCCCAgGCCCTGTCTTTGTGGAGTTCCCGATTGATGTTCTCTACCCATACCACCTGGTGAAAAGGGAAGCTGGAATAAAGGAAAATCCAGTTGGTTTGTTcccaaaaattgttaattgGTACATTAAAAGGCATGTCCAGAAACTATTTGCTGGTGCTTGGGAGAAACGAGATAGCTCTCCACTTCCCGTTGACATACCAATGCCATCAGAAAGCCAAGTCTCGGAGGCAGTGTCGATAATCAAGAATGCCAAAAAGCCGTTGATTTTACTTGGGAGCCAGGCAACTCTTCCTCCAATCAGCGCTGACAAACTACAAAAATCCATCGagGCCTTAGGAATTCCCTGTTTCCTTGGCGGCATGTCGCGGGGTCTTCTGGGTAGAAATAGCCCGCTGCACATAAGACAAAGACGACGGGACGCTTTGAAGGAGGCGGATGCCGTCATCTTAGCTGGTACTGTTTGCGATTTCCGCTTGTCCTACGGACGAGTTCTGAATAGAAAGTCCAAGATCATTGCTGTCAATAGGGACAAAACACAGCTGATGAAGAATGCAAATGTATTTTGGAAACCAACGCTAGCCGTGCAAGCTGATCCAGCTAGTCTGTTGGTTTCGATTCAACAGAAAATAGGAGATTTCAAAGTTGATGCCGATTGGACCACCATGCTGAAGGAAAGAGATAATGCTAAGGAGAAAAGCAATAGCGACAAGGCAAATGAGTCGACAGATAAATTTTTGAATCCAATCAAAGTTCTGCACCGATTGGAAGAGACAATGGCCGATGATTCGATTATTGTCGCTGACGGAGGCGATTTTGTCGGATCTGCAGCTTACATCCTCAGACCACGTGGGCCCATGCGCTGGCTCGATCCTGGTGCGTTTGGCACACTTGGCGTCGGTGGAGGGTTCGCCCTTGGTGCCAAGTTATGCCGGCCTGAATCTGAAGTTTGGATCATTTACGGCGATGGCTCTTGCGCCTACAGTGTTGCAGAGTTCGACACGTTTGCCAGACACAAGGTGCCAGTCATTGCCCTTGTCGGCAACGATGCATGTTGGTCACAGATCGCCCGGGAGCAGGTGCCTATGTTTGGAACAGCTGTTGGATGCCAGTTGGCTCATACCGATTATGACGTTGTCGCTGAGGGGTATGGCGGAAAAGGCCTGAAGATAGAGAAGGGCTCCGATGATGATATCGAGGAGGTTTTCAAGAAGGCACAGGAACTGCAGAAGCAAGGCAAACCTGTTCTCATCAATGCATTGATCGGGAAGACTGACTTCAGAGAAGGATCCATTTCAGTTTAG

Transcript

BRAKERMNPT00000002299

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NV04	2-hydroxyacyl-CoA lyase 2 OS=Danio rerio OX=7955 GN=ilvbl PE=2 SV=1
A6QQT9	2-hydroxyacyl-CoA lyase 2 OS=Bos taurus OX=9913 GN=ILVBL PE=2 SV=2
A1L0T0	2-hydroxyacyl-CoA lyase 2 OS=Homo sapiens OX=9606 GN=ILVBL PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004736 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01369 all species →	Sec7	Sec7 domain	Domain	Interproscan
PF15410 all species →	PH_9	Pleckstrin homology domain	Domain	Interproscan
PF02776 all species →	TPP_enzyme_N	Thiamine pyrophosphate enzyme, N-terminal TPP binding domain	Domain	Interproscan
PF00205 all species →	TPP_enzyme_M	Thiamine pyrophosphate enzyme, central domain	Domain	Interproscan
PF02775 all species →	TPP_enzyme_C	Thiamine pyrophosphate enzyme, C-terminal TPP binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000904 all species →	Domain	Sec7 domain	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR029061 all species →	Homologous_superfamily	Thiamin diphosphate-binding fold	Interproscan
IPR035999 all species →	Homologous_superfamily	Sec7 domain superfamily	Interproscan
IPR041681 all species →	Domain	Pleckstrin homology domain 9	Interproscan
IPR012001 all species →	Domain	Thiamine pyrophosphate enzyme, N-terminal TPP-binding domain	Interproscan
IPR029035 all species →	Homologous_superfamily	DHS-like NAD/FAD-binding domain superfamily	Interproscan
IPR045229 all species →	Family	Thiamine pyrophosphate enzyme	Interproscan
IPR023394 all species →	Homologous_superfamily	Sec7, C-terminal domain superfamily	Interproscan
IPR012000 all species →	Domain	Thiamine pyrophosphate enzyme, central domain	Interproscan
IPR000399 all species →	Conserved_site	TPP-binding enzyme, conserved site	Interproscan
IPR011766 all species →	Domain	Thiamine pyrophosphate enzyme, TPP-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR18968 all species →	THIAMINE PYROPHOSPHATE ENZYMES	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0032012 all species →	Biological Process	regulation of ARF protein signal transduction	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0030976 all species →	Molecular Function	thiamine pyrophosphate binding	Interproscan
GO:0003984 all species →	Molecular Function	acetolactate synthase activity	Interproscan
GO:0005948 all species →	Cellular Component	acetolactate synthase complex	Interproscan
GO:0009097 all species →	Biological Process	isoleucine biosynthetic process	Interproscan
GO:0009099 all species →	Biological Process	L-valine biosynthetic process	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0000287 all species →	Molecular Function	magnesium ion binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic 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 BRAKERMNPP00000002299.1.

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 →