Gene detail

Detailed information of scaffold56.g54.t3 in Morbakka virulenta

Genomic Location: scaffold56:2298510...2331780
NR annotation: XP_027051353.1, ATP-citrate synthase-like [Pocillopora damicornis]
Species Morbakka virulenta · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

scaffold56.g54.t3

ATGGTTTTTGTGTGCTTTCTCTCCTGTGATAAAAGTGATACAATCTGTGAACTTGGAGGAACAGATGAACTTGCTAACTATGGTGAATACTCTGGTGCACCAACCGAATCTCAGACATTCCAATATGCAAAAACTGTCCTTCAATTAATGACGGAGGGAGAATCTCACCCAGAAGGAAAAATTCTCATAATCGGTGGTGGAATTGCAAACTTTACCAATGTGTCGGCTACCTTTTCTGGAATCGTCAAAGCATTGAAGAATTTTCAACAGAAGCTCATTGAGCACAAAGTGAAAATCTTTGTAAGAAGAGGAGGCCCAAACTACCAAGAGGGATTACGTATTATGAGAGAGTTGGGAAGATCACTTGGCGTTCCAGTTTTTGTTTTTGGGACTGAGACACATATGACTGCAATAGTTGGAATGGCATTGGGAAAGTATCCAATTCCAAAGGAAGAAGGTTATGATTCTAACGAGGCTGCTAATATGTTCTTCTCACCTCCAGAGCATTCGCATCACCATCCATCAGATGAAGCTCCGACCAGACGGACAAGAAGTATTCAAGAACAAAAAAGTGAGGATAGTAATGGAAGCGGATATGTGCTCGTAGAGGAAACTGAAATTGCGCCTGGTGTTTTGTTTCATAATAATACTAAAGCCATAGTTTGGGGTCTCCAATCACGAGCTGTTCAGGGAATGCTTGATTTTGATTATGTATGTTCAAGAAAATACCCCTCAGTAACTGCTATGGTCTATCCCTTCAGTGGAAATCACAGAACAAAATTTTATTATGGTCATAAGGAGATCATGATACCAGTTTACAAAGAAATGGCTGAAGCTATGAAACGACATCCAGATGCAGACACACTTGTTAACTTTGCTTCTCTGAGATCTGCTTATGACAGTACAGTTGAGGCATTGAACTATCCACAGATTAGAACGGTTGCAATTATTGCAGAAGGTATTCCGGAGCGAAAAACACAGCAGCTGAATTTGAAGGCAAAGGAAAAAGGAGTAACGATCATTGGACCAGCTACTGTTGGTGGTATCAAGCCAGGGTGTTTCAAAATTGGTAACACTGGAGGAATGCTTGATAACATTTTGGCATCAAAACTTTATAGACCAGGAAGTGTTGGCTACGTCTCAAGATCTGGTGGATTGTCAAACGAACTAAACAACATTATAGCAAGAAACTCCAACGGTGTATGCGAGGGAATTGCTATTGGTGGTGATAAGTATCCAGGAACAACTTTTATTGACCATCTGCTGAGGTACGAAGAAAATTCGGAAATAAAAATGATGGTGATTCTAGGAGAGGTCCAATTTGGCCACGCCAATGCCTGTGCCAATGCAGATGCTGAAATGTCGATAACCAAGAACAAGGCCCTTAAAGAAGCTGGTGCGTTTGTTCCTGATTCTTTTGATGATCTTGGCCTTGTCATCAAAAACGTATACACAAAACTGGTGGAAGATTCAGTTATTGTTCCCAAACCAGAAAAAAGACCCCCGACTGTTCCAATGGATTATTCATGGGCACAGTTCATTTTGGTTAATCACAATAATGACGAATTACATTCTTGTTCATTTCTTAATAGAAACGTATACACAAAACTGGTGGAAGATTCAGTTATTGTTCCCAAACCAGAAAAAAGACCCCCGACTGTTCCAATGGATTATTCATGGGCACAGGAACTTGGTTTGATCAGGAAGCCGTCATCATTTATCTCAACTATCTGTGATGAGCGTGGACAAGAACTTCTTTATGCAGGAATGCCAATTTCAGATGTGTTTAAGGAAAACCTCGGTATCGGAGGTACCCTTGGGTTGCTGTGGTTTCAGAGAAGATTACCTCCCTATGCTTGCAAATTCATAGAGATGTGTGTCATGATTACTGCTGATCATGGGCCAGCTGTATCTGGGGCACACAACACAATAGTAACAGCAAGAGCAGGAAAAGATCTCATTTCTTCATTGTGCTCGGGCTTGCTAACCATTGGGGATCGCTTTGGTGGTGCGTTGGACGGTGCTGCAAAACAGTTCAGTGAAGCATTTGATTCCGGGATGAGTCCTATGGAGTTTGTAAATGAAATGCGAAAACGTGGACAGCTGATTATGGGTATTGGGCATCGTGTCAAGTCAATAAACAACCCCGACATGAGAGTAAAGATTTTATTAAATTTTGTGAAAGAAAATTTTCCATTGACACCCCTGTTGGATTATGCTCTGGAAGTAGAGAAAATAACAACATCAAAGAAACCTAATCTGATTTTAAATGTGGATGGATCAATTGGAGTTGTTCTAGTTGACTTGCTTCGACACTGCGGATCTTTCACCAAGTAA

Transcript

scaffold56.g54.t3

TGACCCTAATGAATTGACAAGACCTTATTGTTTCCAAGTTAAAAATCTCAGCAATTAACAATTTAATTTTGTTTTGATGGTTTTTGTGTGCTTTCTCTCCTGTGATAAAAGTGATACAATCTGTGAACTTGGAGGAACAGATGAACTTGCTAACTATGGTGAATACTCTGGTGCACCAACCGAATCTCAGACATTCCAATATGCAAAAACTGTCCTTCAATTAATGACGGAGGGAGAATCTCACCCAGAAGGAAAAATTCTCATAATCGGTGGTGGAATTGCAAACTTTACCAATGTGTCGGCTACCTTTTCTGGAATCGTCAAAGCATTGAAGAATTTTCAACAGAAGCTCATTGAGCACAAAGTGAAAATCTTTGTAAGAAGAGGAGGCCCAAACTACCAAGAGGGATTACGTATTATGAGAGAGTTGGGAAGATCACTTGGCGTTCCAGTTTTTGTTTTTGGGACTGAGACACATATGACTGCAATAGTTGGAATGGCATTGGGAAAGTATCCAATTCCAAAGGAAGAAGGTTATGATTCTAACGAGGCTGCTAATATGTTCTTCTCACCTCCAGAGCATTCGCATCACCATCCATCAGATGAAGCTCCGACCAGACGGACAAGAAGTATTCAAGAACAAAAAAGTGAGGATAGTAATGGAAGCGGATATGTGCTCGTAGAGGAAACTGAAATTGCGCCTGGTGTTTTGTTTCATAATAATACTAAAGCCATAGTTTGGGGTCTCCAATCACGAGCTGTTCAGGGAATGCTTGATTTTGATTATGTATGTTCAAGAAAATACCCCTCAGTAACTGCTATGGTCTATCCCTTCAGTGGAAATCACAGAACAAAATTTTATTATGGTCATAAGGAGATCATGATACCAGTTTACAAAGAAATGGCTGAAGCTATGAAACGACATCCAGATGCAGACACACTTGTTAACTTTGCTTCTCTGAGATCTGCTTATGACAGTACAGTTGAGGCATTGAACTATCCACAGATTAGAACGGTTGCAATTATTGCAGAAGGTATTCCGGAGCGAAAAACACAGCAGCTGAATTTGAAGGCAAAGGAAAAAGGAGTAACGATCATTGGACCAGCTACTGTTGGTGGTATCAAGCCAGGGTGTTTCAAAATTGGTAACACTGGAGGAATGCTTGATAACATTTTGGCATCAAAACTTTATAGACCAGGAAGTGTTGGCTACGTCTCAAGATCTGGTGGATTGTCAAACGAACTAAACAACATTATAGCAAGAAACTCCAACGGTGTATGCGAGGGAATTGCTATTGGTGGTGATAAGTATCCAGGAACAACTTTTATTGACCATCTGCTGAGGTACGAAGAAAATTCGGAAATAAAAATGATGGTGATTCTAGGAGAGGTCCAATTTGGCCACGCCAATGCCTGTGCCAATGCAGATGCTGAAATGTCGATAACCAAGAACAAGGCCCTTAAAGAAGCTGGTGCGTTTGTTCCTGATTCTTTTGATGATCTTGGCCTTGTCATCAAAAACGTATACACAAAACTGGTGGAAGATTCAGTTATTGTTCCCAAACCAGAAAAAAGACCCCCGACTGTTCCAATGGATTATTCATGGGCACAGTTCATTTTGGTTAATCACAATAATGACGAATTACATTCTTGTTCATTTCTTAATAGAAACGTATACACAAAACTGGTGGAAGATTCAGTTATTGTTCCCAAACCAGAAAAAAGACCCCCGACTGTTCCAATGGATTATTCATGGGCACAGGAACTTGGTTTGATCAGGAAGCCGTCATCATTTATCTCAACTATCTGTGATGAGCGTGGACAAGAACTTCTTTATGCAGGAATGCCAATTTCAGATGTGTTTAAGGAAAACCTCGGTATCGGAGGTACCCTTGGGTTGCTGTGGTTTCAGAGAAGATTACCTCCCTATGCTTGCAAATTCATAGAGATGTGTGTCATGATTACTGCTGATCATGGGCCAGCTGTATCTGGGGCACACAACACAATAGTAACAGCAAGAGCAGGAAAAGATCTCATTTCTTCATTGTGCTCGGGCTTGCTAACCATTGGGGATCGCTTTGGTGGTGCGTTGGACGGTGCTGCAAAACAGTTCAGTGAAGCATTTGATTCCGGGATGAGTCCTATGGAGTTTGTAAATGAAATGCGAAAACGTGGACAGCTGATTATGGGTATTGGGCATCGTGTCAAGTCAATAAACAACCCCGACATGAGAGTAAAGATTTTATTAAATTTTGTGAAAGAAAATTTTCCATTGACACCCCTGTTGGATTATGCTCTGGAAGTAGAGAAAATAACAACATCAAAGAAACCTAATCTGATTTTAAATGTGGATGGATCAATTGGAGTTGTTCTAGTTGACTTGCTTCGACACTGCGGATCTTTCACCAAGTAAGTGTTATTTTTAGCCTCCTTTAGTTATATTTTGGCGGTGTTCGTTAAAGCATGTATTTATCGAACTTTTTTGCCCCCTCGACATTTAAAAGCTTACGCAAAATTCAGTTATCTTGAGTTGAAATTTAAAGATTCTGGTTGGAGTTTTTAGTTTTACGAGTAAATGTAGAAGACACAAATCAACAATTTCTATCAGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q32PF2	ATP-citrate synthase OS=Bos taurus OX=9913 GN=ACLY PE=2 SV=1
Q91V92	ATP-citrate synthase OS=Mus musculus OX=10090 GN=Acly PE=1 SV=1
Q2TCH3	ATP-citrate synthase OS=Ovis aries OX=9940 GN=ACLY PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005029 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16114 all species →	Citrate_bind	ATP citrate lyase citrate-binding	Domain	Interproscan
PF00549 all species →	Ligase_CoA	CoA-ligase	Domain	Interproscan
PF02629 all species →	CoA_binding	CoA binding domain	Domain	Interproscan
PF00285 all species →	Citrate_synt	Citrate synthase, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002020 all species →	Family	Citrate synthase	Interproscan
IPR016102 all species →	Homologous_superfamily	Succinyl-CoA synthetase-like	Interproscan
IPR016142 all species →	Homologous_superfamily	Citrate synthase-like, large alpha subdomain	Interproscan
IPR003781 all species →	Domain	CoA-binding	Interproscan
IPR032263 all species →	Domain	ATP-citrate synthase, citrate-binding domain	Interproscan
IPR005811 all species →	Domain	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Interproscan
IPR033847 all species →	Conserved_site	ATP-citrate lyase/succinyl-CoA ligase, conserved site	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR016143 all species →	Homologous_superfamily	Citrate synthase-like, small alpha subdomain	Interproscan
IPR036969 all species →	Homologous_superfamily	Citrate synthase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23118 all species →	ATP-CITRATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003878 all species →	Molecular Function	ATP citrate synthase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006085 all species →	Biological Process	acetyl-CoA biosynthetic process	Interproscan
GO:0006633 all species →	Biological Process	fatty acid biosynthetic process	Interproscan
GO:0046912 all species →	Molecular Function	acyltransferase activity, acyl groups converted into alkyl on transfer	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
K00895	pfp, PFP; diphosphate-dependent phosphofructokinase	EC:2.7.1.90	Fructose and mannose metabolism	ko00051	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 Morbakka virulenta 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 Morbakka virulenta, 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 →