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Aliases for CRNKL1 Gene

Aliases for CRNKL1 Gene

  • Crooked Neck Pre-MRNA Splicing Factor 1 2 3
  • CRN 3 4 6
  • SYF3 Pre-MRNA-Splicing Factor 2 3
  • Crooked Neck Homolog 3 4
  • HCRN 3 4
  • Crooked Neck Pre-MRNA Splicing Factor-Like 1 (Drosophila) 2
  • Crooked Neck (Drosophila Crn Homolog)-Like 1 2
  • Crooked Neck Pre-MRNA Splicing Factor-Like 1 3
  • Crn, Crooked Neck-Like 1 (Drosophila) 2
  • Crooked Neck-Like Protein 1 3
  • Crn, Crooked Neck-Like 1 3
  • Crooked Neck-Like 1 3
  • MSTP021 3
  • Clf1 3
  • SYF3 3
  • CLF 3

External Ids for CRNKL1 Gene

Previous GeneCards Identifiers for CRNKL1 Gene

  • GC20M020003
  • GC20M020010
  • GC20M019963

Summaries for CRNKL1 Gene

Entrez Gene Summary for CRNKL1 Gene

  • The crooked neck (crn) gene of Drosophila is essential for embryogenesis and is thought to be involved in cell cycle progression and pre-mRNA splicing. A protein encoded by this human locus has been found to localize to pre-mRNA splicing complexes in the nucleus and is necessary for pre-mRNA splicing. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jul 2013]

GeneCards Summary for CRNKL1 Gene

CRNKL1 (Crooked Neck Pre-MRNA Splicing Factor 1) is a Protein Coding gene. Among its related pathways are Spliceosome. GO annotations related to this gene include RNA binding.

UniProtKB/Swiss-Prot for CRNKL1 Gene

  • Involved in pre-mRNA splicing process

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CRNKL1 Gene

Genomics for CRNKL1 Gene

Regulatory Elements for CRNKL1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CRNKL1 Gene

20,034,361 bp from pter
20,056,046 bp from pter
21,686 bases
Minus strand

Genomic View for CRNKL1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CRNKL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CRNKL1 Gene

Proteins for CRNKL1 Gene

  • Protein details for CRNKL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Crooked neck-like protein 1
    Protein Accession:
    Secondary Accessions:
    • A8K9T4
    • Q5JY64
    • Q8WYI5
    • Q9BZI9
    • Q9BZJ1
    • Q9BZJ2
    • Q9GZW7
    • Q9H8F8
    • Q9NQH5
    • Q9NYD8

    Protein attributes for CRNKL1 Gene

    848 amino acids
    Molecular mass:
    100452 Da
    Quaternary structure:
    • Identified in the spliceosome C complex. Present in a spliceosome complex assembled in vitro containing CRNKL1, HPRP8BP and SNRPB2. Isoform 2 seems to be predominant in the spliceosome complex. Interacts with PPIL2 (via the PPIase cyclophilin-type domain); they may form a trimeric complex with HSP90.
    • Sequence=BAB14303.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB14485.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for CRNKL1 Gene


neXtProt entry for CRNKL1 Gene

Proteomics data for CRNKL1 Gene at MOPED

Post-translational modifications for CRNKL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

No data available for DME Specific Peptides for CRNKL1 Gene

Domains for CRNKL1 Gene

Protein Domains for CRNKL1 Gene

Suggested Antigen Peptide Sequences for CRNKL1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the crooked-neck family.
  • Contains 17 HAT repeats.
  • Belongs to the crooked-neck family.
  • Contains 17 HAT repeats.
genes like me logo Genes that share domains with CRNKL1: view

No data available for Gene Families for CRNKL1 Gene

Function for CRNKL1 Gene

Molecular function for CRNKL1 Gene

UniProtKB/Swiss-Prot Function:
Involved in pre-mRNA splicing process

Gene Ontology (GO) - Molecular Function for CRNKL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 12084575
GO:0005515 protein binding IPI 22365833
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with CRNKL1: view
genes like me logo Genes that share phenotypes with CRNKL1: view

Animal Model Products

CRISPR Products

miRNA for CRNKL1 Gene

miRTarBase miRNAs that target CRNKL1

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for CRNKL1 Gene

Localization for CRNKL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CRNKL1 Gene

Nucleus speckle. Cytoplasm. Note=Colocalizes with core spliceosomal snRNP proteins. Also diffusely expressed in cytoplasm.

Subcellular locations from

Jensen Localization Image for CRNKL1 Gene COMPARTMENTS Subcellular localization image for CRNKL1 gene
Compartment Confidence
nucleus 5
cytoskeleton 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CRNKL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular --
GO:0005634 nucleus --
GO:0005681 spliceosomal complex IDA 11991638
GO:0005737 cytoplasm IEA --
GO:0016607 nuclear speck IEA --
genes like me logo Genes that share ontologies with CRNKL1: view

Pathways for CRNKL1 Gene

SuperPathways for CRNKL1 Gene

Superpath Contained pathways
1 Spliceosome
genes like me logo Genes that share pathways with CRNKL1: view

Pathways by source for CRNKL1 Gene

1 KEGG pathway for CRNKL1 Gene

Gene Ontology (GO) - Biological Process for CRNKL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000245 spliceosomal complex assembly IDA 12084575
GO:0000398 mRNA splicing, via spliceosome IC 11991638
GO:0002230 positive regulation of defense response to virus by host IMP 22020285
GO:0006396 RNA processing --
GO:0006397 mRNA processing --
genes like me logo Genes that share ontologies with CRNKL1: view

Transcripts for CRNKL1 Gene

Unigene Clusters for CRNKL1 Gene

Crooked neck pre-mRNA splicing factor-like 1 (Drosophila):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CRNKL1 Gene

No ASD Table

Relevant External Links for CRNKL1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CRNKL1 Gene

mRNA expression in normal human tissues for CRNKL1 Gene

Protein differential expression in normal tissues for CRNKL1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (23.7) and Plasma (9.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CRNKL1 Gene

SOURCE GeneReport for Unigene cluster for CRNKL1 Gene Hs.171342

mRNA Expression by UniProt/SwissProt for CRNKL1 Gene

Tissue specificity: Widely expressed. Highly expressed in testis. Not expressed in brain and lung
genes like me logo Genes that share expressions with CRNKL1: view

Expression partners for CRNKL1 Gene

* - Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for CRNKL1 Gene

Orthologs for CRNKL1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CRNKL1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CRNKL1 35
  • 88.65 (n)
  • 96.36 (a)
  • 90 (a)
(Canis familiaris)
Mammalia CRNKL1 35
  • 89.85 (n)
  • 93.39 (a)
  • 88 (a)
(Mus musculus)
Mammalia Crnkl1 35
  • 89.31 (n)
  • 96.32 (a)
Crnkl1 16
Crnkl1 36
  • 96 (a)
Gm4782 36
  • 85 (a)
(Pan troglodytes)
Mammalia CRNKL1 35
  • 99.68 (n)
  • 99.46 (a)
  • 99 (a)
(Rattus norvegicus)
Mammalia Crnkl1 35
  • 89.26 (n)
  • 96.32 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 92 (a)
-- 36
  • 86 (a)
(Ornithorhynchus anatinus)
Mammalia CRNKL1 36
  • 83 (a)
(Gallus gallus)
Aves CRNKL1 35
  • 81.62 (n)
  • 93.38 (a)
  • 93 (a)
(Anolis carolinensis)
Reptilia CRNKL1 36
  • 92 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia crnkl1 35
  • 80 (n)
  • 90.29 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.2975 35
(Danio rerio)
Actinopterygii crnkl1 35
  • 74.62 (n)
  • 84.83 (a)
zgc55327 35
crnkl1 36
  • 77 (a)
fruit fly
(Drosophila melanogaster)
Insecta crn 37
  • 68 (a)
crn 35
  • 64.66 (n)
  • 70.03 (a)
crn 36
  • 66 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001879 35
  • 63.63 (n)
  • 72.08 (a)
(Caenorhabditis elegans)
Secernentea M03F8.3 37
  • 62 (a)
M03F8.3 35
  • 63.52 (n)
  • 63.72 (a)
M03F8.3 36
  • 57 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CLF1 36
  • 38 (a)
CLF1 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G41770 35
  • 60.25 (n)
  • 60.46 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.10127 35
(Hordeum vulgare)
Liliopsida Hv.10575 35
(Oryza sativa)
Liliopsida Os.8927 35
Os05g0289400 35
  • 60.42 (n)
  • 60.27 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.11208 35
bread mold
(Neurospora crassa)
Ascomycetes NCU02717 35
  • 56.85 (n)
  • 55.66 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes cwf4 35
  • 58.04 (n)
  • 53 (a)
Species with no ortholog for CRNKL1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CRNKL1 Gene

Gene Tree for CRNKL1 (if available)
Gene Tree for CRNKL1 (if available)

Paralogs for CRNKL1 Gene

(2) SIMAP similar genes for CRNKL1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with CRNKL1: view

No data available for Paralogs for CRNKL1 Gene

Variants for CRNKL1 Gene

Sequence variations from dbSNP and Humsavar for CRNKL1 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type MAF
rs200178 -- 20,034,161(-) TTTTA(A/G)AAGGG downstream-variant-500B
rs200185 -- 20,045,783(-) tgact(A/T)atcca intron-variant
rs926646 -- 20,042,682(-) TATTT(A/G)TGCAG intron-variant
rs1046341 -- 20,034,648(-) AACAT(A/C)ATCTT utr-variant-3-prime
rs1046346 -- 20,036,260(-) AGAAA(C/T)AGCAG reference, stop-gained

Structural Variations from Database of Genomic Variants (DGV) for CRNKL1 Gene

Variant ID Type Subtype PubMed ID
nsv819555 CNV Loss 19587683
nsv525682 CNV Loss 19592680
nsv3320 CNV Insertion 18451855
nsv517467 CNV Loss 19592680

Relevant External Links for CRNKL1 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CRNKL1 Gene

Disorders for CRNKL1 Gene

Relevant External Links for CRNKL1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator

No disorders were found for CRNKL1 Gene.

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Novoseek inferred disease relationships and Genatlas for CRNKL1 Gene

Publications for CRNKL1 Gene

  1. Corin I555(P568) allele is associated with enhanced cardiac hypertrophic response to increased systemic afterload. (PMID: 17296875) Rame J.E. … Dries D.L. (Hypertension 2007) 3 48
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  3. An unappreciated role for RNA surveillance. (PMID: 14759258) Hillman R.T. … Brenner S.E. (Genome Biol. 2004) 3 4
  4. Interaction of U-box-type ubiquitin-protein ligases (E3s) with molecular chaperones. (PMID: 15189447) Hatakeyama S. … Nakayama K.I. (Genes Cells 2004) 3 4
  5. Crooked neck is a component of the human spliceosome and implicated in the splicing process. (PMID: 12084575) Chung S. … Rymond B.C. (Biochim. Biophys. Acta 2002) 3 4

Products for CRNKL1 Gene

Sources for CRNKL1 Gene

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