Gene detail

Detailed information of gene02552.t1 in Actinoscyphia liui

Genomic Location: chr1:38487627...38508287
NR annotation: XP_020894376.1, L-fucose kinase isoform X1 [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene02552.t1

ATGGCTGCCTCGAGGCCACGAAATGTAGTTTGGTCTGCCATTGTACTAACATGTCAGGATAAATCAAGTGCTGATGCTTATAGAAAAGAGCTTGAAATTCACCAGCATGCAGGGTTCATAGATAAGAGTACACTTTTACTCACAATAGAAGACCCTAAAGCAAGGGTGGGGAGTGGAGGAGCAATGCTGAATGCCTTGCTTGTTGTGACAGAGTACTTGAGTGCCAAACAAGGTTCTACTACATTAGATTACAGTGTGATTGAAAAAAGTAGAATATTGATTATGAATGTGGGTCGAGACTATCCGTTCAGTACCTGTGGCCCAGTGTTCACTACATTGCCTGGCAAACTCTACAGCTACAACAATTCACTAGTCTCTTTAGCTGATTGTCTAGTAACAAACTTTGATTGTTTACTTTATTATCTAACTAACTGTATATGTAAAGGGTCCCCTAATGGTGTCTGGGTGTGCAGTACTGATATGATGCTGTCATTACCATCACATACAGAAATAAACTGGACCAACATCACTCATGATGTCGTACTTGTGTTGTTTGAAAGTTGTGTTAAAAATGCACTGCACCATGGGGTTTGTCAGCTTGATGATCAGGGGAATGTAAAGAATATCATTTACAAAGGCAGTGAAGATGAAGTCAGGGATTGTGCATTTGATAATGGTAAAGTACCATTGGTTGGAAGTATTGTGTATTTTAGTGTCAAAGCAACTGAGAAACTACTAGTTTTACATTCATATCCACCACTTGATGCTTGTACTTATTATGGATTGGACAATGGAGCTAAACCTATTCAGATCTCTCTGTTCTTTGACCTTCTCTCAAGTATGGCAACAGGTGTCAGTGAAAGTGATTATGTTTCTGGTAAGAAAAGCTGTGCCTATGGGAAAAGCACCAGAACAGGTGTCAGGCAAATGTCTGATGAGGAAAACCAGTTAATGACTGGTGCAAGGAAGACATTGTGGAAGCATCTTAGAGGAATGAAAGCACACGGAGTTATGATGGGAGAAGGATGCCAATACCACTATGTGCTGCATCAAACAGGAGTGTACTACAGAGCTCAAATGTCAAAATGTCTGTCATTTTTTGAGAGTGCAAACCTTCCTTTCAAAGCATCGTCACAAGTGCATGTGTCTGTTGATAATAGTCAATCCATTGATGATAAAGCCATATTAATCAATACTGTTATAGAAGGTTCAGTAAAAGTACAGAAGGAGGCTGTAATAACTCACAGTTATTTACAGGGTGAATTAACAATTGGAACTGGATGTGTTTTATCAGCAATTGGACCCAATGATTTCAAGGGTGAATCAAAATCAATTCCAGACTACCTATGTCTGCTTGGTTACAATGTGTCTTTACCAAATGTCAGCTCTGATCCTCATAAAGTGTTTGTTGTCTTTGGTGTCAATGATCATTTAGATAAACATGTATCGAGTGGATCTTTCTGTAACTCTGACTGGAAACATTTCTTTCAAAGAACTGGCATAACAGAGGATGATATTTGGGTACATGGTCTGCCTGAGAAGGAGCGTACCCTACTGAATGCACGTCTGTTTCCTGTGATAAATCCATTCCCTGATAGACACATGTCACCCTTATGTGATGGTCTGTGGCTGGCTGGTGTGCAGATTGAACACTCGCATGAAACCATGCAAAAAAGATGGCATAAATCATGGCGACTTTCATTAAAGGAAATCATGTCGTGTGTGGATGCTGGGACCGAGTTTCACTGCAGAAGGCAATTGTTCTTTGAAATAGGACGACGACAAGTCAAGGCTGCTTTGGAGGGTGGTACCAACACATGCTTCCTCCCTTTCCTCAAGACATGCGCAATAGAAGGTTTTCACAAAGAGATCTTGGCTTCAATGGATGAAATTGCATGTAAGAGTGACTCTATGGGTGTGGCAGGCCGTACATTAGCATGTATCGCTGATGTCCTGGGTGCGATGGCTGGAGAGAAAGCTGGTCTTCGTAGTGGCCCTGCGCAGAATATAGCATGGAAAGAAGCGTTTCAGCTACTTGAGAACAAACGAATCAAGGATGGCGTGAAGGCCATGGCAGTGGAGAGATCTAAATGGATGGACAGACCTGACCTGTTAATCCGTGCTGCACGTCATTACGAAGGTGCTGAGCAGATCCTTAGACGACACGCTGTGATGACGGCTCAGCAGTACATAGATTTCAAGAAGGTCGACTGTCCTTCTATGGATCAGTGGGTTGTTGCAGAAGCGCCAGTTCGATTAGATTTCAGTGGTGGATGGACCGATACACCTCCCATTGCTTATGAACATGGGGGCGTGGTGACTAATGCCGCCATTCAACTCAATGGACAGAAACCGCTCCAAGTAAAAGCCAAGCGAATACCTGAACTGCAAATTGTGATAGAAGGAGGACCCAGTGGTCTTGTTGTATGCCAGAAATCAGACGACATGGCTGACTATTTCCAACCTCATGCACCAGGTGCCCTAGTGAAAGCATGTTTCTGCGCAGCCAAGTTAGTGGATCTGTCGTCCTCACAATCCCTTGCTGACCAGCTCAAAGAGCAGTATGGTGGTGGCTTTGAGATCCATTCCATGGCGGACGTGCCTTATGGAAGTGGCCTGGGTACAAGTAGTATCCTAGCAGGCGTTGTCATGGCAGCAGTATTACGAGCCGCTGGCCGCACCGCGGACATTGCTTCGCTTGTCCATGCTGTAATGGTCGTCGAACAGATGCTTACATGTGGTGGAGGCTGGCAGGATAATGTTGGGGGACTAGCACCTGGTTTTAAGATTGCTCGTTCCAGTCCTGCGCTTCCCATCAAAGTAAAATACCAAGAACTTAAAGTTTCGTCGTCTTTTGTCGAAGAACTGAATAAATGTCTGGTTTTGGTATATACTGGTAAGACTAGACTGGCCAAGAACCTGTTACAGAATGTGGTCCGTAATTGGTACGGAAGAGAACCAAACATCGTGAAGGTTGTCGATGATCTTGCAAGCAATGCTGATGATATTGCCGAAGCAATTGTCGAAGGTGATTTATCTCGTTTTGGACAGTGCGTCAGTAACTACAGGGAGCAAAAGAGGCTCATAGCGCCAGGGACGGAGCCAGAAATGATTCGTCGAATGATGGAAGCAGTCCAACCACATGCTTATGGTCAATGTCTCGCAGGCGCAGGCGGTGGAGGATTTCTGTGCGTCATCTCAAAGTCGGCTGATGATGCGTCAAAAGTTAAGGATATTTTACATAGTCAGTTTTCAGAAAGCGTCGAATTCTATCAAGTCTCCATTGACAACGAAGGACTCGTAGTGAGAGTGGAGGAATTGTAA

Transcript

gene02552.t1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7TMC8	L-fucose kinase OS=Mus musculus OX=10090 GN=Fcsk PE=1 SV=1
Q8N0W3	L-fucose kinase OS=Homo sapiens OX=9606 GN=FCSK PE=1 SV=2
Q9LNJ9	Bifunctional fucokinase/GDP-fucose pyrophosphorylase OS=Arabidopsis thaliana OX=3702 GN=FKGP PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002006 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07959 all species →	Fucokinase	L-fucokinase	Repeat	Interproscan
PF08544 all species →	GHMP_kinases_C	GHMP kinases C terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012887 all species →	Domain	L-fucokinase	Interproscan
IPR036554 all species →	Homologous_superfamily	GHMP kinase, C-terminal domain superfamily	Interproscan
IPR013750 all species →	Domain	GHMP kinase, C-terminal domain	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR001174 all species →	Family	Galactokinase/homoserine kinase	Interproscan
IPR052203 all species →	Family	GHMP Kinase-Related Enzymes	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32463 all species →	L-FUCOSE KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016772 all species →	Molecular Function	transferase activity, transferring phosphorus-containing groups	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016301 all species →	Molecular Function	kinase activity	Interproscan
GO:0042352 all species →	Biological Process	GDP-L-fucose salvage	Interproscan
GO:0050201 all species →	Molecular Function	fucokinase 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
K05305	FUK; fucokinase	EC:2.7.1.52	Amino sugar and nucleotide sugar metabolism	ko00520	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 Actinoscyphia liui 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 Actinoscyphia liui, 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 →