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Crnkl1 crooked neck pre-mRNA splicing factor 1 [ Mus musculus (house mouse) ]

Gene ID: 66877, updated on 5-Mar-2024

Summary

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Official Symbol
Crnkl1provided by MGI
Official Full Name
crooked neck pre-mRNA splicing factor 1provided by MGI
Primary source
MGI:MGI:1914127
See related
Ensembl:ENSMUSG00000001767 AllianceGenome:MGI:1914127
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
crn; 1200013P10Rik; 5730590A01Rik
Summary
Predicted to enable RNA binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Is expressed in brain; olfactory epithelium; and spinal cord. Human ortholog(s) of this gene implicated in basal cell carcinoma. Orthologous to human CRNKL1 (crooked neck pre-mRNA splicing factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 12.8), liver E14 (RPKM 8.1) and 24 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 G1; 2 71.28 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (145759402..145776620, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (145917482..145934700, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_05933 Neighboring gene STARR-positive B cell enhancer ABC_E8796 Neighboring gene predicted gene, 39954 Neighboring gene TM2 domain containing 1 pseudogene Neighboring gene N(alpha)-acetyltransferase 20, NatB catalytic subunit Neighboring gene STARR-positive B cell enhancer ABC_E5996 Neighboring gene STARR-positive B cell enhancer mm9_chr2:145783203-145783504 Neighboring gene cilia and flagella associated protein 61 Neighboring gene STARR-seq mESC enhancer starr_05934 Neighboring gene STARR-seq mESC enhancer starr_05935 Neighboring gene predicted gene, 34629 Neighboring gene STARR-seq mESC enhancer starr_05936 Neighboring gene insulinoma-associated 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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

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Related articles in PubMed

  1. Crooked neck is a component of the human spliceosome and implicated in the splicing process. Chung S, et al. Biochim Biophys Acta, 2002 Jul 19. PMID 12084575
  2. Interaction of U-box-type ubiquitin-protein ligases (E3s) with molecular chaperones. Hatakeyama S, et al. Genes Cells, 2004 Jun. PMID 15189447
  3. Microarray analysis of Foxa2 mutant mouse embryos reveals novel gene expression and inductive roles for the gastrula organizer and its derivatives. Tamplin OJ, et al. BMC Genomics, 2008 Oct 30. PMID 18973680, Free PMC Article
  4. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article
  5. Irisin Mediates Effects on Bone and Fat via αV Integrin Receptors. Kim H, et al. Cell, 2018 Dec 13. PMID 30550785, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 PubMed 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in spliceosomal complex assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spliceosomal complex assembly ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Prp19 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of post-mRNA release spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
 PubMed 

General protein information

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Preferred Names
crooked neck-like protein 1
Names
Crn, crooked neck-like 1
crooked neck homolog

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_025820.3 → NP_080096.1  crooked neck-like protein 1

    See identical proteins and their annotated locations for NP_080096.1

    Status: PROVISIONAL

    Source sequence(s)
    AL672100
    Consensus CDS
    CCDS16828.1
    UniProtKB/Swiss-Prot
    P63154, Q542E8, Q9CQC1
    Related
    ENSMUSP00000001818.5, ENSMUST00000001818.5
    Conserved Domains (4) summary
    pfam02184
    Location:196 → 227
    HAT; HAT (Half-A-TPR) repeat
    COG5107
    Location:130 → 525
    RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
    sd00006
    Location:84 → 109
    TPR; TPR repeat [structural motif]
    cl26712
    Location:64 → 195
    U3_assoc_6; U3 small nucleolar RNA-associated protein 6

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    145759402..145776620 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P63154.1 GenPept UniProtKB/Swiss-Prot:P63154

Gene LinkOut

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