Gene detail

Detailed information of ENSAVKP00000013551.1 in Catalaphyllia jardinei

Genomic Location: chr14:15992129...16048472
NR annotation: PFX15855.1, C-1-tetrahydrofolate synthase, cytoplasmic, partial [Stylophora pistillata]
Species Catalaphyllia jardinei · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSAVKT00000014627

ATGGATATCAAAACGTTGCTCGATAATCTCCGTAAAGAAGTGTCTTGCTCGGTGTGTTCCGACATATTTACCGATCCAAAACAATTACCGTGCTTGCACAGTTTCTGTCTGCACTGCTTGAAACAATGGACGAGCCATGGCTGCGACACGATCAGATGCCCGAAATGTCAAGCAGTTAGCAGAATACCTGAAAGTGGCGATCTAAAAGATCTTCCAACCAGTTTTTATCTGAATGGCTTGATTGATGTGTTGGCAATCAAAGAGTGCACACGCAGTCACGTAAGATGTGGGAACTGCGAGAAAAAAAGCTCCGAGACTTCTTACTGTTTCCACTGTTGCATATTTTATTGTCAAGAGTGCGTAACTGCACACAACATCATGCGAAGCAATAAAGATCACCGTGTTCTGGCGCTGAAAGACTTCCAAGACAAAGACTATGAGAATGTGCTAAAGCGACCTGTGTTCTGTGCAAAGAAACGGCACGAGAAAGAAGAGCTAAAGTACTTTTGtaagaactgtaaaatggcgGTCTGCCAAACTTGTGTCACCCTCAGCCACAGCGGTCATGCTTTAGAACACATAGAAGAAGAAGCTGAAAGACAAAAGATTGAGATGAAATCAATGATTCAGTTAAGACCTGCTATTTCTTTTGGAAATCAAGGTGTTTCTGTTGGAATGTTTTACCATCCTTGGGGGGTGGCAGTGAATACCAGGGACGAGATAGCTATAACTGATCATTTTAACCATAGAGTTCAAATCTTCAAGAGTAATGGAATATACTTAAGATCCTTTGGTCGGTATGGTACAAAAGCGGGCGAATTTATTACGCGTAGTAGACATCTACAAAATCCGCTTCAATCGTGCTTTGTGGTTCTTTTGATCGTTGATCTTTACCCAAAACGTGTTCCTGAATATTCGTTTATCTCACCTTATTTTGAAGTTGAAACACTGGAAATACTGCAACAAACTGAAGCAAGTCAATCTGTCGCTGAGGGAAAAGGAATCGAAGAGGGAACTGTTGGAGGTGAAGCACAGTTTGTTCTGACCACAAAAAACGCAGAGGGAAGACAGTGTTACAACAAACATGACCGTGTAACGGTCGAGATCAGGAATAAACAAGTACGAGAATGCGCGTCGGAAgtgcaaataaaaaacaataaagatGGAAGCTACAAGATTAGTTATTCACTCAGAGATAAAGGCAAATACGAAGTGACAGTAAAGGTAAACGGCAAACACGTTCTTGATAGTCCCTTTTCTATTGAAGTGAATTTAAGGCCTGTTTTATCTTTTGGAAAAGAAGGTTCGTCTGTTGGAATGTTTGACTGTCCCTGGGGGGTGGCAGTGAATGCCAGGGACGAGATAGCTGTAACTGATAGCATGAACCACAGAGTTCAGATCTTCGCCAGTGATGGAAAATACTTGAGATCTTTTGGTCAGGAAGGTGACAAGGCGGGCGAATTTAACCGTCCTAGAGGAATAACTTttcataaaaatggaaatattttCGTAGCAGACCAGCATAACCATAGGATCCAGATTTTCAGTGGTGAGGGTGAGTACGTTGGTATGTTTGGTGGGAAAGGAAACCTTGATAGTCAGCTCTCTTATCCTTGGGGTTTATCTGTAGACAGTAATGGCAATATCATTGTTGCTGATGCAGGTAACAATCTGATTAAGATCTTTTCTCCTGATGGCAAGTTTCTAATGAAGATAGGTGGGCAGGGCTCTCTTGCTTGGCCTATCCACTGTGTTCAGTGTGATAGATATCTTATAGTGTCAGACTGCCAGGAACACTGCGTAAAGGTTTTCAGCTATGATGGAAAGTTTCAGTACAAGTTTGGAAAGCAGGTTGGAGGGGACAGGGAGTTAAATTATCCCTGCTGTTTGACAGTGAACAAATCAGGACACCTGATGGTCTGTGATTTGGGTAATAATAGAATACAAGTATTTCAACTTAATGGAAAGTTTGTTGGCAAGCTTGGAACTGAGGGCAGTAATTTAGGAGAATTCAATTACCCGCGGTCTGTAGCAGTCCTCAGCAATGGCCGAATTGTTGTGTCTGAGGCCAGGAAATTCATTTCCGCCCCGAACACCATTCGTCAGAAGTTAAAGGAAGATGTTGCAGCAGTTCAAGCAGaaaatgaaggatttaaaccaGGACTTGCCATTGTGCAGATTGGTGACAGAAGTGACTCCACTGTTTACATCAAGTCAAAAGTCAAGGCTGCTGAAGAGATTGGTATGCTTGCAAGACATGTGAAGCTGTCAAGGACCTCTACTCAAGCAGATAGTTTGTTCAAGGTTATACCCTTGAAGTGTTTTGCAGCTGACTTCTGTGCACTCACAGTGTTTCACTTCTACCTTAAGGTTCTCAAAGCTGTGGATGAATTAAACAAAGATTCAACAATTCACGGCATTATTGTACAGCTCCCCCCTGATTCTGTTGAGCCAATTGATCCTGCGATTTGTACAAATGCTGTTGCACCAGAGAAGGATTGTGGCTGCAACCACTGGCTGAGAACAGTTCAATTTTCAGTTTGGAATGCTTTTTTTCCTCATTTTGAGTATTGTACTATTAGCATCACGTTTCATTACATTCTACAGGTTGTTGCAGGAAAACCACTGCCTCCTGAATATACATCTGAGAGCCTAGACCTTGTTAGAAATGGGGTGGTGAATCTCGCCAAACAGATTGAGAATGCCAGATTCTTTGGAGTTCATGCAGTTGTTGCTGTCAACAGATTTCCGACAGACACAGATGCAGAAATAGCTCTGGTTATTGAGCTCTCCAAGGAGGCTGGAGCATTTGATGCTGTGGAGTGCACTCACTGGGCAGATGGAGGTAAGGGTGCTGTGAATTTAGCTGATGCAGTGCTAAAAGCTGTAGAAGAACCTGTTGACTTCAAGTTCCTGTATGATGTGAAGTTGCCAATTGAAGATAAGATGAGAATTATTGCCCAGAAGATTTATGGAGCAGATGACATTGAGCTGTTGCCTGAAGCTGAGAAGAAAGTCGAACGTTACAAAAAGCAGGGTTTTAATGACTTGCCAATCTGCATGGCCAAGACTCATTTGTCACTCTCTCACAACCCTGAACTGAAGGGATGCCCTAAAGGTAGATCCCATTACCATGACTGA

Transcript

ENSAVKT00000014627

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q922D8	C-1-tetrahydrofolate synthase, cytoplasmic OS=Mus musculus OX=10090 GN=Mthfd1 PE=1 SV=4
P11586	C-1-tetrahydrofolate synthase, cytoplasmic OS=Homo sapiens OX=9606 GN=MTHFD1 PE=1 SV=4
Q5R8P0	C-1-tetrahydrofolate synthase, cytoplasmic OS=Pongo abelii OX=9601 GN=MTHFD1 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000211 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00763 all species →	THF_DHG_CYH	Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain	Domain	Interproscan
PF00630 all species →	Filamin	Filamin/ABP280 repeat	Domain	Interproscan
PF01268 all species →	FTHFS	Formate--tetrahydrofolate ligase	Family	Interproscan
PF01436 all species →	NHL	NHL repeat	Repeat	Interproscan
PF00643 all species →	zf-B_box	B-box zinc finger	Domain	Interproscan
PF00097 all species →	zf-C3HC4	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001258 all species →	Repeat	NHL repeat	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR000315 all species →	Domain	B-box-type zinc finger	Interproscan
IPR020630 all species →	Domain	Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain	Interproscan
IPR050952 all species →	Family	Tripartite Motif and NHL Repeat Containing E3 Ligases	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR046346 all species →	Homologous_superfamily	Aminoacid dehydrogenase-like, N-terminal domain superfamily	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017868 all species →	Repeat	Filamin/ABP280 repeat-like	Interproscan
IPR011042 all species →	Homologous_superfamily	Six-bladed beta-propeller, TolB-like	Interproscan
IPR000559 all species →	Family	Formate-tetrahydrofolate ligase, FTHFS	Interproscan
IPR014756 all species →	Homologous_superfamily	Immunoglobulin E-set	Interproscan
IPR001298 all species →	Repeat	Filamin/ABP280 repeat	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR018957 all species →	Domain	Zinc finger, C3HC4 RING-type	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24104 all species →	E3 UBIQUITIN-PROTEIN LIGASE NHLRC1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0004488 all species →	Molecular Function	methylenetetrahydrofolate dehydrogenase (NADP+) activity	Interproscan
GO:0000209 all species →	Biological Process	protein polyubiquitination	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0004329 all species →	Molecular Function	formate-tetrahydrofolate ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0046872 all species →	Molecular Function	metal ion 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 ENSAVKP00000013551.1.

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 Catalaphyllia jardinei 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 Catalaphyllia jardinei, 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 →