Gene detail

Detailed information of Csp0G325040 in Chrysogorgia sp. JL179-B06

Genomic Location: Contig00615:1407121...1424679
NR annotation: no NCBI-NR hit recorded
Species Chrysogorgia sp. JL179-B06 · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Csp0G325040

ATGTGGATATTTGAAAGTGTGTCTGTGTTTATAGTGTTGTTTCTTTTGCTTTTTCTCTTAATTATTGCAATCAAGTTTTGGATTTTAAAACTGAAACTTCATTATAGATTTTTCTACAAGCTAGTTGAAGATTCAAAATACCATGGAGGTGAATTAGTTGCCAAAGTATTACAGGCTCATGGTGTAAAATATGTCTTTACGCTTTGTGGTGGACATATTTCACCAATACTCGTAGCATGTGAAAAAATAGGAATCAGAATTGTGGATACCAGACATGAGGTATCAGCTGTGTTTGCTGCAGATGCTGTTGCCAGGTTGTCTGGCGTCGTTGGAGTTGCTGCCGTAACTGCTGGTCCTGGTCTTACCAACACCATCACTGCTGTAAAAAATGCACAAATGGCTGAGTCACCATTGCTTTTGATTGGGGGAGCTGCAGCAACACTGTTGAAGGAGAGAGGTGCTCTTCAAGATATTGACCAAATGTCTCTCTTTAAACCCCTTTGCAAATATTGTGTCACAATCAACAGGGTTGGTGATATCATTCCCATTGTTAGAAAAGCAATTCAAATTGCCCAGTCTGGAACCCCAGGTCCAGTTTTTGTTGAATTTCCAATAGACACCCTTTATCCTTATCCAATTATCAAGAAAGAAGTTGGTCTAAAGGAAAATCCTAAAGGATTAGGCCAAAAGATTATAAACTGGTATATGGAAAATCATTTGTTTACTTTGTTTGCTGGCGCATGGGATCCACAACCACTTGAACCATTAGCTGTGTCAGTACCAGAACCATCAAGCAAGGAAATTGAAAGTACTATTGAGCTTGTGTCCAAAGCCAAAAAACCACTGATATTACTTGGCAGCCAATCAACTCTTCCACCAATTCCTGCGGAAAAACTCAAAGTTTCCCTTGAGGTCCTAGGTATCCCATGTTTTCTTGGAGGTATGTCTCGTGGTTTATTGGGAAGGAACAGTCCTCTTCATATTCGACAACGCAGACGTGATGCTCTCAAGGAAGCTGATGTGGTCATCTTAGCTGGTACTGTATGTGATTTTCGTCTATCGTATGGCAGAGTGTTAAACAAGAAGACCAAAGTCATTGCTGTGAATAGGAACAAAGAACAGTTATACAAGAATTCAGACATGTTCTGGAAACCAACCTTAGCTATTAATGGTGATCCAGCCTCTCTTATTGTCGCACTCAGTGAGAACCTCAAAGGGTACAAGTGTCCTGAGGAATGGCCATTAATGTTGAAGGAGAGAGATGATGAAAAAGAAATAGCTAACAGTTTAAAAGCCGATGAAATGGTGGACAAGTATTTGAATCCTCTTAAAGTACTTCATTCTTTGGAAGATGTCATGGACAAGAACAGTATCATCGTAGCTGATGGTGGAGACTTTGTCGGTTCTGCCGCGTACATCTTACGACCTCGTGGTCCATTACGTTGGCTTGATCCAGGTGCCTTTGGAACTCTGGGTGTGGGAGGTGGGTTTGCTTTGGGGGCGAAACTCTGTCGACCTGATTCAGAAGTCTGGATTATCTATGGTGACGGATCATGTGGTTATAGTGTCGCTGAGTTTGATACATTCACCAGACATAGACTTCCAGTTATTGCTTTGGTTGGCAATGACGCCTGTTGGAGCCAAATAGCACGAGAACAAGTGCCGATGTTTGGTAGCAGTGTTGGCTGTGATCTGGCGTTCACAGATTATCACGTCGTTGCCGAAGGCTATGGTGGAAAAGGCATCACGCTAGGCGAAGGAGATGACGCTAACATAGCAAAAGTGTTAATGAAAGCTCAGGCCCTAGCGAAAGATGGTACGGCTGTGCTGGTGAACGCTTTGATTGGCAAAACTGACTTCCGGAAGGGTTCAATCTCTGTTTAATATCCGACGAAACAAATTATTCATGTCCCCGGCGGTCGTGGGAGCTGACGGACAAAGATTGGAATGAGAATATGTGAAATTGGAATGAGAAATGCCAATTGGAATGTGTGTTTCTAAAAATTATAATG

Protein

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
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
PF02776 all species →	TPP_enzyme_N	Thiamine pyrophosphate enzyme, N-terminal TPP binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029061 all species →	Homologous_superfamily	Thiamin diphosphate-binding fold	Interproscan
IPR029035 all species →	Homologous_superfamily	DHS-like NAD/FAD-binding domain superfamily	Interproscan
IPR012000 all species →	Domain	Thiamine pyrophosphate enzyme, central domain	Interproscan
IPR045229 all species →	Family	Thiamine pyrophosphate enzyme	Interproscan
IPR011766 all species →	Domain	Thiamine pyrophosphate enzyme, TPP-binding	Interproscan
IPR000399 all species →	Conserved_site	TPP-binding enzyme, conserved site	Interproscan
IPR012001 all species →	Domain	Thiamine pyrophosphate enzyme, N-terminal TPP-binding domain	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0000287 all species →	Molecular Function	magnesium ion 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: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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11259	ILVBL, HACL2; 2-hydroxyacyl-CoA lyase	EC:4.1.2.-	Enzymes with EC numbers	-	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 Chrysogorgia sp. JL179-B06 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 Chrysogorgia sp. JL179-B06, 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 →