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qki2 QKI, KH domain containing, RNA binding 2 [ Danio rerio (zebrafish) ]

Gene ID: 393815, updated on 7-Apr-2025

Summary

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Official Symbol
qki2provided by ZNC
Official Full Name
QKI, KH domain containing, RNA binding 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-1462
See related
Ensembl:ENSDARG00000010018 AllianceGenome:ZFIN:ZDB-GENE-040426-1462
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
qkr; qkib; qkic; zgc:65890; zgc:77340
Summary
Enables mRNA 3'-UTR binding activity. Acts upstream of or within skeletal myofibril assembly. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Is expressed in several structures, including cardiovascular system; central nervous system; lateral line system; myotome; and segmental plate. Orthologous to human QKI (QKI, KH domain containing RNA binding). [provided by Alliance of Genome Resources, Apr 2025]
Orthologs
all
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Genomic context

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See qki2 in Genome Data Viewer
Location:
chromosome: 12
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (34953147..35023683)
105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (34852025..34918582)

Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene tubulin folding cofactor C Neighboring gene peripherin 2a (retinal degeneration, slow) Neighboring gene zgc:112285 Neighboring gene translocase of inner mitochondrial membrane 23 homolog a (yeast)

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Quaking RNA-Binding Proteins Control Early Myofibril Formation by Modulating Tropomyosin. Bonnet A, et al. Dev Cell, 2017 Sep 11. PMID 28867488
  2. Characterization and Expression of the Zebrafish qki Paralogs. Radomska KJ, et al. PLoS One, 2016. PMID 26727370, Free PMC Article
  3. Antagonistic regulation of PAF1C and p-TEFb is required for oligodendrocyte differentiation. Kim S, et al. J Neurosci, 2012 Jun 13. PMID 22699901, Free PMC Article
  4. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Clone Names

  • MGC65890

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables SH3 domain binding IEA
Inferred from Electronic Annotation
more info
  
enables mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA transport IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of macrophage differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of astrocyte differentiation 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
  
acts_upstream_of_or_within regulation of translation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within skeletal myofibril assembly IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in spliceosome-depend formation of circular RNA ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
protein quaking-B
Names
quaking
quaking c
quaking-related protein

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_200842.2 → NP_957136.2  protein quaking-B

    See identical proteins and their annotated locations for NP_957136.2

    Status: PROVISIONAL

    Source sequence(s)
    BC065344
    UniProtKB/Swiss-Prot
    Q6P104, Q6P7D9
    Related
    ENSDARP00000020217.8, ENSDART00000027034.10
    Conserved Domains (3) summary
    PRK04654
    Location:139 → 299
    PRK04654; sec-independent translocase; Provisional
    cd02395
    Location:83 → 205
    SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
    pfam16544
    Location:10 → 68
    STAR_dimer; Homodimerization region of STAR domain protein

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007123.7 Reference GRCz11 Primary Assembly

    Range
    34953147..35023683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021480038.2 → XP_021335713.1  protein quaking-B isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q889
    Conserved Domains (4) summary
    cd02395
    Location:83 → 205
    SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
    pfam16551
    Location:314 → 341
    Quaking_NLS; Putative nuclear localization signal of quaking
    pfam16544
    Location:10 → 68
    STAR_dimer; Homodimerisation region of STAR domain protein
    cl26677
    Location:139 → 299
    PRK00708; sec-independent translocase; Provisional

  2. XM_021480039.2 → XP_021335714.1  protein quaking-B isoform X2

    UniProtKB/TrEMBL
    A0A8M9QE52
    Conserved Domains (4) summary
    cd02395
    Location:83 → 205
    SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
    pfam16551
    Location:313 → 340
    Quaking_NLS; Putative nuclear localization signal of quaking
    pfam16544
    Location:10 → 68
    STAR_dimer; Homodimerisation region of STAR domain protein
    cl26677
    Location:139 → 298
    PRK00708; sec-independent translocase; Provisional

  3. XM_005156355.5 → XP_005156412.1  protein quaking-B isoform X3

    See identical proteins and their annotated locations for XP_005156412.1

    UniProtKB/Swiss-Prot
    Q6P104
    Related
    ENSDARP00000110005.1, ENSDART00000123988.4
    Conserved Domains (3) summary
    PRK04654
    Location:139 → 298
    PRK04654; sec-independent translocase; Provisional
    cd02395
    Location:83 → 205
    SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
    pfam16544
    Location:10 → 68
    STAR_dimer; Homodimerization region of STAR domain protein

RNA

  1. XR_011017329.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P104.1 GenPept UniProtKB/Swiss-Prot:Q6P104

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