Gene detail

Detailed information of evm.model.HiC_scaffold_26.835 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_26:9114705...9137706
NR annotation: XP_031571747.1, cytosolic 10-formyltetrahydrofolate dehydrogenase-like isoform X1 [Actinia tenebrosa]
Species Chrysaora quinquecirrha · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.HiC_scaffold_26.835

ATGCTCAGTGCTGGAAGATTATTCAGACAAGTGACACGTAGCGTTTATACATCTGCAACGAACATGGGATCTTTGCGAGTTGCTGTAATAGGCCAGTCCAACTTTGGTGCCGAAGTTTACAAATCCTTGAGAGAAAAGGGCCACAAAATCGTCGGAGTTTTCACCATCCCTGATGTCCAAGGAAAAGCTGACCCACTGGCTCAAGAAGCTGAGAAAGATGGCGTTAACGTCTTCAAATttccaaaatggcaaaataagaAAGTTGCAATCCCTGAGGTTGTTGAACAGTATAAAAATGTCAACGCGGAGTTGAACGTCATGCCGTTTTGCTCGCAGTTCATTCCCATGGAAGTCATAGAAAGTCCCGAGAAAGGATCAATTGTTTATCATCCTTCTATCCTTCCAAGACATCGCGGAGCTTCGGCTATCAACTGGACCCTGATGGAAGGAGATTCGAAGGGAGGTTTTACAATCTTCTATGCGGATGACGGCTTAGATACTGGTCCAATCCTTCTGCAGAAAATTGTTGATATTGACCCAGATGAAACTGTGGACACGCTATACAACCGATTTTTGTATCCTGAGGGTATCAAAGGAATGGTTGAAGCAGTTGAACTTATTGCAGAAGGAAGAGCACCAAAGATAACCCAAACAGAGGAAGGAGCAACTTATGATAAGATCTGGAAAAAGAAATCTGTAGCAAAGATACCACCAAACAAGACTGGACGAGAGCTCCACAATTTTATAAGAGGCAATGATAAGaaCCCTGGCGCATGGACATCGATAGATGGAGAGGAGGTCACCTTTTTTGGTTCAACAATGTTCAAGAAGATGAAAGTACCAAGAGGCACAGAAGTTGCCATTGAGGGATATGACAAGCCAGCTATTGTGCACAAAGGTGGCATGCTGCTTACTGGAACTGATGGAAGAATGGTCAATGTAAAGACGCTACAGTTGGCAGATGGAAAAATGATTGAAGCATCGAAATTTGGTCAAGCTGTTGAAGTAAAGGAAGCTTTAGTCTTGACTGATGATGAAAAGAAGATCGAGAAAGCAATCTTTAACTCCTGGGCTGGAATTTTGAACACTCAGAACATTGAAGGAGAAACAGACTTTTTCAAGGCTGGTGCAGGATCCATGGATGTTGCAAGATTGGTCGAAGAAGTCAAATCAAGTGGAGTTGTTCTTGAAAGCGAGGAAGTTTACATGAACACAAAGTATGAGGACTTTGTCCGATTCACCATTCTGCGATCAAGAGGAGTAGGAAAAGAAGAGTTCAAATGCGATACTCTTGATGTGGAAGTGAACAAAATGACAGTTCGTATGCCATATCAGTTGTTCATTGATGGAGAAATGGTTGATGCTGAATCTGGAAGAACCTTTGATACTATCAACCCAGCTGATGAAACGGTATTAGCCAAAGTTGCTCTTGGAGGCAAAGAAGATGTCGATCGTGCTGTCGAAGCTGCAAAGGAAGCTTTTGAAGACGGAGAATGGGGAAGAATGAATGCTAGAGATCGGGGTGCATTATTGTACAACGTTTGTGGTTTGATTGTTCCATGGAATTATCCCTTGATGATGTTGGCGTGGAAGATGGCTCCACTTCTTGCTGCAGGAAACACGGTCGTTCTCAAGCCAGCTCAGgtCACACCAATGACAGCCTTGAAGTTCGCTGAATTGGCTGCTAAGGCTGGATTCCCTAAGGGAGTCATCAACATTGTCCCTGGATCAGGATCAGTCGTTGGTCAAGCCATCTGTGATCATCCCGATATTAGAAAGGTGGGATTCACTGGATCTACACCAATCGGCGCTGGAATCATGAGAAGTGCTGCTGTAAGCAATGTGAAAAGAGTATCTTTGGAGCTTGGTGGCAAATCACCACTGATTATCTTCAATGACTGTGATATGGAAAAGGCAGTCAGACAGgaATTCAAGCTTGTATTTTCAACAAAGGAGAAAACTGTATTGCTGCAGATAAGCTTTTGCTACACACTACTTTTATCTGCCGCTGGCAGGTATCCAACAATCGTAATGTCAAATTACGACGAAATCCCAACGCTTATGCTTATTTGCGTCCTCAAGCTTGTTGAAGTCGGTTGCCCAAAGCTTTTTAGGAGGCGCTGTGACAAAATGAAAATCCTACTGCTAATTCTTGGGTTCTTTGCAAATAGCTGTTTGCAGCTGCAACAGTATTGTAATAGCAACACAGTAGGGCATTTTTATCGCAAAATAACCAAGAGCAGCGATGAAGGAAACAACGCCCATGACGAGGAAACACTGAACCCCGAATTCTTCGACTGTGGAGTTAAAGATTCCTGCACACATGTGGTTAAGTTTAAAGACACCAACACTTATGAAATAGTGAATGGTGAAGCAGACTTGAAGAGCATAAAGCGACCAATCACAGTATGGGAAAAACAAGATAAGAGGCCAAAGAAAGAATGGATTGTGATCCAAAGAAGAGTCGATGGAACAGTGGATTTCACTCGCAACTGGGCTGATTATAAATTGGGTTTTGGTAACCCGTCTGGAAACTTTTGGATTGGGCTGGAAAAAATGCACGCTTTGGCTGGGCCTGGCAAAGGCGCTGTCCTTAATATCACAATGAAACACTGGGTTAATCCAAATAAGCTGTTTTATGCAGCGTATACAAAGTTCGAGATTGGAAACGAGTGCGATGGATATCGACTGAATGTTGGTGGATATTCTGGAAATGCTGGCAATTCTTTGTCGTATCACAGTGGAATGAAATTCTCAACGGATGATAGAGATAATGATCGTGCTCCATGGAGTTGTGCCTCTAAATATAAAGCAGGCTGGTGGTATGATCATTGCTTTATGGCTAACCTGAATAATGTGTATCATAAAGATAGCTCCACAAGCGATTATTATATGAGCTGGCGGAACATTGCAGGGTCTTTTGGCAACATCTTCATGTCTGAGATGAAGATACAAatCAAGgaattgaagaaaatgaaaattggtGATCCTCTTGATCGTTCCACTGACCATGGACCACAAAATCACAAGGCACATCTGGAATCACTCCTCCATTACGTTGAAACCGGGGTCAAAGAAGGAGCCAAATTGGTCTATGGTGGTAAAAGACTCGACAGAAAGGGATACTTTTTGGAACCAGCTGTGTTTACTGATGTCACGGATGAAATGTTCATTGCTAAAGAAGAATCTTTTGGCCCTGTTATGATTATCTCAAAATTCAATAATAAtgATATTGACGATGTGGTATTCAGTGCCAACAAAACTGAATATGGATTAGCTTCAGGTGTCTTTACAAAAGATCTTAGCAAGGCTCTCCAAGTTGCAGACAGACTTGATGCTGGTACATGCTTTGTAAACACATACAACAAAACCGACGTTGCAGCTCCGTTTGGAGGATTCAAACAGTCTGGATTTGGAAAAGATCTTGGAATGGAAGCTCTGAATGAATACCTCAAGACAAAGGTTGTCACTGTCGAATATTGA

Transcript

evm.model.HiC_scaffold_26.835

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q63ZT8	Cytosolic 10-formyltetrahydrofolate dehydrogenase OS=Xenopus tropicalis OX=8364 GN=aldh1l1 PE=2 SV=1
Q6GNL7	Cytosolic 10-formyltetrahydrofolate dehydrogenase OS=Xenopus laevis OX=8355 GN=aldh1l1 PE=2 SV=1
Q3SY69	Mitochondrial 10-formyltetrahydrofolate dehydrogenase OS=Homo sapiens OX=9606 GN=ALDH1L2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004160 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00171 all species →	Aldedh	Aldehyde dehydrogenase family	Family	Interproscan
PF00147 all species →	Fibrinogen_C	Fibrinogen beta and gamma chains, C-terminal globular domain	Domain	Interproscan
PF02911 all species →	Formyl_trans_C	Formyl transferase, C-terminal domain	Domain	Interproscan
PF00551 all species →	Formyl_trans_N	Formyl transferase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015590 all species →	Domain	Aldehyde dehydrogenase domain	Interproscan
IPR002181 all species →	Domain	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Interproscan
IPR016161 all species →	Homologous_superfamily	Aldehyde/histidinol dehydrogenase	Interproscan
IPR005793 all species →	Domain	Formyl transferase, C-terminal	Interproscan
IPR029510 all species →	Conserved_site	Aldehyde dehydrogenase, glutamic acid active site	Interproscan
IPR036056 all species →	Homologous_superfamily	Fibrinogen-like, C-terminal	Interproscan
IPR036477 all species →	Homologous_superfamily	Formyl transferase, N-terminal domain superfamily	Interproscan
IPR009081 all species →	Domain	Phosphopantetheine binding ACP domain	Interproscan
IPR016162 all species →	Homologous_superfamily	Aldehyde dehydrogenase, N-terminal	Interproscan
IPR002376 all species →	Domain	Formyl transferase, N-terminal	Interproscan
IPR014716 all species →	Homologous_superfamily	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Interproscan
IPR011034 all species →	Homologous_superfamily	Formyl transferase-like, C-terminal domain superfamily	Interproscan
IPR036736 all species →	Homologous_superfamily	ACP-like superfamily	Interproscan
IPR016163 all species →	Homologous_superfamily	Aldehyde dehydrogenase, C-terminal	Interproscan
IPR037022 all species →	Homologous_superfamily	Formyl transferase, C-terminal domain superfamily	Interproscan
IPR001555 all species →	Active_site	Phosphoribosylglycinamide formyltransferase, active site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11699 all species →	ALDEHYDE DEHYDROGENASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004029 all species →	Molecular Function	aldehyde dehydrogenase (NAD+) activity	Interproscan
GO:0016155 all species →	Molecular Function	formyltetrahydrofolate dehydrogenase activity	Interproscan
GO:0016620 all species →	Molecular Function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	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
K00289	ALDH1L; formyltetrahydrofolate dehydrogenase	EC:1.5.1.6	One carbon pool by folate	ko00670	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 Chrysaora quinquecirrha 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 Chrysaora quinquecirrha, 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 →