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Qki quaking, KH domain containing RNA binding [ Mus musculus (house mouse) ]

Gene ID: 19317, updated on 28-Oct-2024

Summary

Official Symbol
Qkiprovided by MGI
Official Full Name
quaking, KH domain containing RNA bindingprovided by MGI
Primary source
MGI:MGI:97837
See related
Ensembl:ENSMUSG00000062078 AllianceGenome:MGI:97837
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Qk; l17Wis1; 1500005P18; l(17)-1Wis; 1110003F05Rik
Summary
Enables mRNA 3'-UTR binding activity and transcription coactivator activity. Involved in several processes, including myofibroblast contraction; regulation of glial cell differentiation; and regulation of mRNA metabolic process. Acts upstream of or within several processes, including long-chain fatty acid biosynthetic process; spermatid development; and vasculature development. Located in cytoplasm and nucleus. Is active in synapse. Is expressed in several structures, including central nervous system; craniocervical region bone; reproductive system; sensory organ; and yolk sac. Orthologous to human QKI (QKI, KH domain containing RNA binding). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Broad expression in frontal lobe adult (RPKM 30.8), cerebellum adult (RPKM 26.6) and 23 other tissues See more
Orthologs
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Genomic context

See Qki in Genome Data Viewer
Location:
17 A1; 17 7.75 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (10425480..10538706, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (10206471..10319361, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 34799 Neighboring gene STARR-seq mESC enhancer starr_41793 Neighboring gene STARR-seq mESC enhancer starr_41794 Neighboring gene STARR-seq mESC enhancer starr_41795 Neighboring gene STARR-seq mESC enhancer starr_41796 Neighboring gene STARR-seq mESC enhancer starr_41797 Neighboring gene predicted gene, 34972 Neighboring gene STARR-seq mESC enhancer starr_41798 Neighboring gene RIKEN cDNA 1700110C19 gene Neighboring gene predicted gene, 46608 Neighboring gene colon adenocarcinoma hypermethylated RNA

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA binding TAS
Traceable Author Statement
more info
PubMed 
enables SH3 domain binding IEA
Inferred from Electronic Annotation
more info
 
enables internal N(7)-methylguanine-containing RNA reader activity IEA
Inferred from Electronic Annotation
more info
 
enables internal N(7)-methylguanine-containing RNA reader activity ISO
Inferred from Sequence Orthology
more info
 
enables mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA 3'-UTR binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables mRNA 3'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables mRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables miRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables miRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables transcription coactivator activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within axon ensheathment IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intracellular mRNA localization IEA
Inferred from Electronic Annotation
more info
 
involved_in intracellular mRNA localization ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within long-chain fatty acid biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mRNA processing ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA stabilization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mRNA stabilization ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA transport IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA transport ISO
Inferred from Sequence Orthology
more info
 
involved_in microglia differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within myelination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in myofibroblast contraction IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of 3'-UTR-mediated mRNA stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of angiogenesis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cardiac muscle cell apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cold-induced thermogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of macrophage differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of macrophage differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of miRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of miRNA catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of translation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of type I interferon production ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of type I interferon production ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of 3'-UTR-mediated mRNA stabilization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cholesterol biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of myelination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of oligodendrocyte differentiation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of oligodendrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of astrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of epithelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of epithelial to mesenchymal transition ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of macrophage differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within spermatid development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in spliceosome-depend formation of circular RNA IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within vascular associated smooth muscle cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in vascular associated smooth muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in vascular associated smooth muscle cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within vasculogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm TAS
Traceable Author Statement
more info
PubMed 
located_in cytoplasmic stress granule IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasmic stress granule ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus TAS
Traceable Author Statement
more info
PubMed 
is_active_in synapse EXP
Inferred from Experiment
more info
PubMed 
is_active_in synapse IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
KH domain-containing RNA-binding protein QKI
Names
QKI-5 protein
QKI-6 protein
QKI-7 protein
QKI-7b protein
lethal, Chr 17, U Wisconsin 1
protein quaking
quaking

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001159516.2NP_001152988.1  KH domain-containing RNA-binding protein QKI isoform 2

    See identical proteins and their annotated locations for NP_001152988.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC113114, AC154238
    Consensus CDS
    CCDS88989.1
    UniProtKB/Swiss-Prot
    Q9QYS9
    Related
    ENSMUSP00000156665.2, ENSMUST00000233828.2
    Conserved Domains (3) summary
    PRK14951
    Location:210281
    PRK14951; DNA polymerase III subunits gamma and tau; Provisional
    pfam16544
    Location:1066
    STAR_dimer; Homodimerization region of STAR domain protein
    cd22465
    Location:81183
    KH-I_Hqk; type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) and similar proteins
  2. NM_001159517.2NP_001152989.1  KH domain-containing RNA-binding protein QKI isoform 1

    See identical proteins and their annotated locations for NP_001152989.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC113114, AC154238
    Consensus CDS
    CCDS49947.1
    UniProtKB/Swiss-Prot
    O88972, Q61110, Q78ZE4, Q78ZE5, Q8K4X9, Q8K4Y0, Q9CW34, Q9QUH4, Q9QYS9, Q9R2A8, Q9Z246
    Related
    ENSMUSP00000156511.2, ENSMUST00000233645.2
    Conserved Domains (4) summary
    PHA03247
    Location:211314
    PHA03247; large tegument protein UL36; Provisional
    pfam16544
    Location:1066
    STAR_dimer; Homodimerization region of STAR domain protein
    pfam16551
    Location:312341
    Quaking_NLS; Putative nuclear localization signal of quaking
    cd22465
    Location:81183
    KH-I_Hqk; type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) and similar proteins
  3. NM_021881.3NP_068681.1  KH domain-containing RNA-binding protein QKI isoform 3

    See identical proteins and their annotated locations for NP_068681.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC113114, AC154238
    Consensus CDS
    CCDS28387.1
    UniProtKB/Swiss-Prot
    Q9QYS9
    Related
    ENSMUSP00000046740.8, ENSMUST00000042296.9
    Conserved Domains (3) summary
    PRK14951
    Location:210281
    PRK14951; DNA polymerase III subunits gamma and tau; Provisional
    pfam16544
    Location:1066
    STAR_dimer; Homodimerization region of STAR domain protein
    cd22465
    Location:81183
    KH-I_Hqk; type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    10425480..10538706 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006523300.4XP_006523363.1  KH domain-containing RNA-binding protein QKI isoform X1

    See identical proteins and their annotated locations for XP_006523363.1

    Conserved Domains (4) summary
    PRK14950
    Location:195305
    PRK14950; DNA polymerase III subunits gamma and tau; Provisional
    pfam16544
    Location:1066
    STAR_dimer; Homodimerization region of STAR domain protein
    pfam16551
    Location:304333
    Quaking_NLS; Putative nuclear localization signal of quaking
    cd22465
    Location:81183
    KH-I_Hqk; type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) and similar proteins
  2. XM_030249598.2XP_030105458.1  KH domain-containing RNA-binding protein QKI isoform X2

    Conserved Domains (3) summary
    PRK14971
    Location:182311
    PRK14971; DNA polymerase III subunit gamma/tau
    pfam16544
    Location:1066
    STAR_dimer; Homodimerization region of STAR domain protein
    cd22465
    Location:81183
    KH-I_Hqk; type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) and similar proteins

RNA

  1. XR_385167.4 RNA Sequence

  2. XR_385168.4 RNA Sequence

  3. XR_385170.4 RNA Sequence

  4. XR_385169.4 RNA Sequence