Gene detail

Detailed information of KAF1744847.1 in Myxobolus squamalis

Genomic Location: scaffold_486:1811...4320
NR annotation: KAF1744847.1, hypothetical protein MXB_3384 [Myxobolus squamalis]
Species Myxobolus squamalis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-gnl|WGS:QWKW|scaffold_486-snap-0.6-mRNA

ATGTTGTTTATAGCGCAATTCAACACTCTCCGTCAGTTATGTTGTAAtccattttatttacttccaaaaaaaaataaaatgatgcagaaaaaATTTGAGTCAGCATATACTATTGACGAAGTcatgcaaaaattaatagaaaaaaagagAGCAGACTGCGAGGAATTGAACAGAAACGTCATAATGTACAATAACGGTCTCGCCGCTGTACAAATACTTGCAGATCAAGTTGATCAAGCCATAACCACTTATAaatcatcaataaatttatataatgaaaataaaccACTTTTTGGTATGGATAAGCTACAAGATGAATCGCTTAAAATGGAATTGAATGAAGCTATTATACAATATTTAGAGAATAGCGctcaacaaataatttcGTCAAAAACTACTTTAAACAGCATTATGATGGAAATTGAACAAATTGAGCATGATAGCACAATTGAAGCCATATTTCAATCAATAATTGCTGGAATCcctaaatttgaaattgaatcaatttcTCGTAAAATCACAAATGcacttttaaaagaaaaaatcaacGAATCACCATTTTGCCGGCCCTTTAACTTTCAAATTCTCGAATTTTATATGATCGACAGTCTTAGTAAAAAtcgaaaCTTATTTTCGGAAATTATAGCTCAACTCGGCAGTTTAGAAATTACtaacagaaaaataatactaaaaaaatcaaaaaaatgctgTGTCGGCGTGGAAAAGTTTATTGTCGACACTTCTTATAAtaacaaattaaatgaaaattgcCCATTTTGCAAtgttgatataaaattaagagCACTGGAAAACCTATTATATGACAAATCATCTTCTGATACGTAtttcaacattttaaaaCCAGAAAAAACAAAGAACAGGAGATTATTAtcattaaaaacatatttccTAAATGTACGCAGCTGGTTTACTGCGCAAGACGAGATTCAAATGTGCTGTAAACGACTCACATTGTCGGGTTTGCTCGCAGAACATAGTGCAACTCCTAATTGCACAGATATTGTGATTAAGAGTATTTCTGCATACCAATTATCTTCTGAAGCAGAAATCAAGCTTCTTCAATGTGATTTGactcaattaaaatattttatcagctTATCTGAATATTCCTCTAAAAAAACAACTTTCAATAAAGAGGCATGCCCAATTTGTTACGAAGATCTGGGAATCTCtTGGATGGTATTATTGTGTAGTCATTTCATATGTTACGAATGTTATAAGACATTTATCAAACACGTTGAACACAATAATATAGAGTGCCCTATTTGTCGATTTGAGAGCCCatcaaatgatattttctaCATTAACACTGATCCTAATTCAGCTTCAAATTCTACAAATCTCGTTTTACCcactaaaatatcaaaaatcatCTCATTGGTGAAGGAGATATTTGAATCAACAGAtgacaaaataataatattttccgagtGGGATtcaattttggaaatatgCAAAACAGAgctgcataaaaataattttaatatctgcGTTGCTCTTAATATCAATCAACTTAGAtcaGAATTGCCTATTTTTCTTGAGAATCCTAATTATCGAATTTTGATCATGAATCTGCGATTAGGATCCAAAGGGATTACTATTACATGTGCAAACCAAATCATATTTGCTGATGTTTGTTTAAATGGTCATGACGAAATTCAAGCAATTGGCAGATGTCGTCGGATAGGACAAACAAAGTATATTCCATTATACTTTACTAGGGTTGTCAAAGTTTATCATTTAATGATGAAAATGAGCAtcgaagaaaaaatattcaaaaataggcATGTCACTGGCTCGTGGTTGTCCCTCAAGCGTAAAAAAACCTTCACTAGTAATGAAGCAATTGAATTCCTAAAATTCAATGAGGATAAATTTGATCTTGATGATAATTTACCAGTAAGCTAACTTACCAAACTCAATTTGTTCTCTTTctcatctatttttttaacttttaatcaGTATTACtt

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q08562	ATP-dependent helicase ULS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=ULS1 PE=1 SV=1
P41447	Probable global transactivator OS=Autographa californica nuclear polyhedrosis virus OX=46015 GN=GTA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003066 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21325 all species →	SHPRH_helical-1st	E3 ubiquitin-protein ligase SHPRH, first helical domain	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR052583 all species →	Family	ATP-dependent Helicase/E3 Ubiquitin Ligase	Interproscan
IPR048686 all species →	Domain	E3 ubiquitin-protein ligase SHPRH, first helical domain	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan
IPR049730 all species →	Domain	SNF2/RAD5-like, C-terminal helicase domain	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45865 all species →	E3 UBIQUITIN-PROTEIN LIGASE SHPRH FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000209 all species →	Biological Process	protein polyubiquitination	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006974 all species →	Biological Process	DNA damage response	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase 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

No KEGG orthology assignment for KAF1744847.1.

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 Myxobolus squamalis 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 Myxobolus squamalis, 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 →