Gene detail

Detailed information of Csp0G167040 in Chrysogorgia sp. JL179-B06

Genomic Location: Contig00328:50209...95193
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

Csp0G167040

ATGGCTCCTATCAGACAAGCGCTGTCTAACAGATTTGAGAATGGGAAGACAATTCCTGGTACAAGGAGTTACCATCATTTGTTTCCACTTTCTGAAGGGAAAATTAGCTACAAGAGGTTGCACCAACGGAACCTCCTCCACAAAACTACTACAACCGCGGGGGGTAAAAAAGACATGAACCTTGAGATTAAAGATGGAGTTGCCATAGTTAGGATTGATCAGCAAAACTCAAAGGTCAATGTGCTTTCAGAAGGTTTAATAAATGAATTCGAACAGGTTTTTGGTGAGGTTATTAGCAATCCAAATATCAGTAGTGCTGTCATCATTTCAGCCAAACCTGGGTGTTTTATCGCTGGTGCCGATGTAAACATGTTGAACGCAGCTGAGACAGGAGAACAGCTTGCAGAAATATCATCAAACGGCCAAAAGATTATGCAGAAATTAGAGGACTGTCCAAAACCTGTTGTTGCTGCCATCATGGGGTCATGTCTTGGTGGTGGCCTTGAGGTCGCTATCAGTTGTCATTACCGAATTGCCGTCAAGGATGCGAAAACCATCCTTGGGACGCCTGAAGTTATGCTTGGTTTGTTACCTGGAGCTGGTGGTACTCAGAGATTACCAAAGTTGGTTGGCTTGCCGGATTCTCTGGACATGATGTTGACGGGAAAAAATATCCGTGCCGACAAAGCCAAGAAAATGGGACTTGTCGACCGTCTTGTGGACGTATTAGGACCTGGGCTTGTTGAACCACAGCAAAACACCTTAAGATATCTAGAAGAAGTCTCCGTCCAAGCGGCCAAGGATTTGGCGTCGAAGAAGATCAAGGTGGACAGATCACGAAAATGGACGTCAATGGCAGGTCTCATGTATAAAGTGACCACGGAGACTGGGTTTGGACAGAACTACGTATTTAAAAAAGCGCAAGAAACTGTGATGAAAAAGACTTTAGGACTTTATCCAGCACCATTAAAGATAATAGACGCTGTTCGCACAGGTGTACAAAAAGGAAGAGCGGAAGGATACGCCGCGGAGTCGAAGGGTTTTGGTGACTTGGGAGGCTCAAGTGAATCGAAATCTTTAATGTCCTTGTTCTTCGGCCAGACGGAGTGCAAGAAAAACAGGTTTGGGAAACCGAAAAAGGAAATTAAATCCGTTGCCGTTCTCGGAGCTGGTCTCATGGGAGCTGGAATTGCTGAAGTTAGTTTACAGAAAGGTTACGATGTCATTCTCAAAGACAACTTCGAACAAGGTGTGATTCGAGGACAAGATCAAATTTATAATGGGATAAACTCGAAAGTAAAAAGAAAAGCCATGACAAGTGCTGAGCGAGATCGTATGTTGTCAGATCTTCAAGCGCAATTGGATTACAACGGATTTGATAAAATTGATATTGTCATCGAAGCAGTTTTTGAGGATTTAGATATCAAACATAAAGTCATTAAAGAGATTGAACAGGTCATCCCAGAGACCTGCGTTTTTGCCTCCAACACGTCTGCCTTACCTATTCACCAGATCGCAGAAGCGAGCAAACGACCTGACAAGGTTATTGGAATGCATTACTTTTCACCGGTGGATAAAATGCCTCTGTTAGAAATTATAACGACAGACAAGACGTCGAAAGAGACCGCAGCGATCGCAGTTGACGTCGGTTTAAAACAAGGGAAAACAGTCATCGTTGTAAAGGACGGTCCTGGATTTTACACAACCAGGATTCTTGCGCCAACTATGGCCGAGGTGATAGCATTGTTACAGGAAGGAATAAGTCCCCAAGAATTGGATAAACTTACCACGAGTTTCGGCTACCCTGTGGGTACAGCTACTCTGGTTGATGAAGTTGGTGTAGATGTCGCTACACATGTTGCTGAAGACTTAGGAAAAGCATTTGGTGCCAGATTCTCAGGAGGTGATATTGGTGTGTTAAAAACAATGGTAGACCAGGGATTTTTAGGAAGAAAGAGCGGCAAAGGCTTTTATATATACTCTGGTGGTAAAGGAAAACGAACGGTGAACAACGGCGCCCTGGAAATTCTTAAAAAGTATTCACTTCCAAAACGAGGCAGCCACTCGCCAGAAGACATTCAGATGCGTCTTGCTTGTCGGTTCGTGAACGAGGCTGTGTTAACATTACAGGAGGGGATCCTGAACAGTGCTGTTGATGGTGACATCGGTGCCGTGTTTGGCTTAGGATTCCCGCCATTTTTAGGAGGTCCATTCCGGTATGTCGATAGCTACGGCGCGGAAAACTTCGTAGCTAAAATGCGTCAGTTCCAAAAAGAAGTCGGTGAAGCTCAGTTTACTCCGTGTCAACTACTACTTGACCACGCCAAGGACCCATCGAAGAAATTCTACAAAAGATGA

Transcript

Csp0G167040

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001436 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00725 all species →	3HCDH	3-hydroxyacyl-CoA dehydrogenase, C-terminal domain	Domain	Interproscan
PF02737 all species →	3HCDH_N	3-hydroxyacyl-CoA dehydrogenase, NAD binding domain	Domain	Interproscan
PF00378 all species →	ECH_1	Enoyl-CoA hydratase/isomerase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006108 all species →	Domain	3-hydroxyacyl-CoA dehydrogenase, C-terminal	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR029045 all species →	Homologous_superfamily	ClpP/crotonase-like domain superfamily	Interproscan
IPR012803 all species →	Family	Fatty acid oxidation complex, alpha subunit, mitochondrial	Interproscan
IPR006176 all species →	Domain	3-hydroxyacyl-CoA dehydrogenase, NAD binding	Interproscan
IPR001753 all species →	Family	Enoyl-CoA hydratase/isomerase	Interproscan
IPR008927 all species →	Homologous_superfamily	6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily	Interproscan
IPR050136 all species →	Family	Fatty acid oxidation complex subunit alpha	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43612 all species →	TRIFUNCTIONAL ENZYME SUBUNIT ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006631 all species →	Biological Process	fatty acid metabolic process	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0016616 all species →	Molecular Function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Interproscan
GO:0003857 all species →	Molecular Function	3-hydroxyacyl-CoA dehydrogenase activity	Interproscan
GO:0004300 all species →	Molecular Function	enoyl-CoA hydratase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006635 all species →	Biological Process	fatty acid beta-oxidation	Interproscan
GO:0016507 all species →	Cellular Component	mitochondrial fatty acid beta-oxidation multienzyme complex	Interproscan
GO:0070403 all species →	Molecular Function	NAD+ 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K07515	HADHA; enoyl-CoA hydratase / long-chain 3-hydroxyacyl-CoA dehydrogenase	EC:4.2.1.17 EC:1.1.1.211	Caprolactam degradation	ko00930	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 →