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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

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

Genomic Location for CRNKL1 Gene

Start:
20,034,361 bp from pter
End:
20,056,046 bp from pter
Size:
21,686 bases
Orientation:
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

Regulatory Elements for CRNKL1 Gene

Proteins for CRNKL1 Gene

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

    Protein Symbol:
    Q9BZJ0-CRNL1_HUMAN
    Recommended name:
    Crooked neck-like protein 1
    Protein Accession:
    Q9BZJ0
    Secondary Accessions:
    • A8K9T4
    • Q5JY64
    • Q8WYI5
    • Q9BZI9
    • Q9BZJ1
    • Q9BZJ2
    • Q9GZW7
    • Q9H8F8
    • Q9NQH5
    • Q9NYD8

    Protein attributes for CRNKL1 Gene

    Size:
    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.
    SequenceCaution:
    • 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

    UniProtKB/Swiss-Prot:

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

No data available for DME Specific Peptides for CRNKL1 Gene

Domains for CRNKL1 Gene

Protein Domains for CRNKL1 Gene

UniProtKB/Swiss-Prot:

CRNL1_HUMAN
Family:
  • Belongs to the crooked-neck family.:
    • Q9BZJ0
Similarity:
  • Contains 17 HAT repeats.:
    • Q9BZJ0
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

miRNA for CRNKL1 Gene

miRTarBase miRNAs that target CRNKL1

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting 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

COMPARTMENTS
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
CRNKL1
ECgene alternative splicing isoforms for
CRNKL1

Expression for CRNKL1 Gene

mRNA expression in normal human tissues for CRNKL1 Gene

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

Q9BZJ0-CRNL1_HUMAN
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

Orthologs for CRNKL1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CRNKL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CRNKL1 36
  • 99.68 (n)
  • 99.46 (a)
CRNKL1 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CRNKL1 36
  • 88.65 (n)
  • 96.36 (a)
CRNKL1 37
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CRNKL1 36
  • 89.85 (n)
  • 93.39 (a)
CRNKL1 37
  • 88 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Crnkl1 36
  • 89.31 (n)
  • 96.32 (a)
Crnkl1 16
Crnkl1 37
  • 96 (a)
OneToMany
Gm4782 37
  • 85 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 92 (a)
OneToMany
-- 37
  • 86 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia CRNKL1 37
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Crnkl1 36
  • 89.26 (n)
  • 96.32 (a)
chicken
(Gallus gallus)
Aves CRNKL1 36
  • 81.62 (n)
  • 93.38 (a)
CRNKL1 37
  • 93 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CRNKL1 37
  • 92 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.2975 36
tropical clawed frog
(Silurana tropicalis)
Amphibia crnkl1 36
  • 80 (n)
  • 90.29 (a)
zebrafish
(Danio rerio)
Actinopterygii crnkl1 36
  • 74.62 (n)
  • 84.83 (a)
crnkl1 37
  • 77 (a)
OneToOne
zgc55327 36
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001879 36
  • 63.63 (n)
  • 72.08 (a)
fruit fly
(Drosophila melanogaster)
Insecta crn 36
  • 64.66 (n)
  • 70.03 (a)
crn 37
  • 66 (a)
OneToOne
crn 38
  • 68 (a)
worm
(Caenorhabditis elegans)
Secernentea M03F8.3 36
  • 63.52 (n)
  • 63.72 (a)
M03F8.3 37
  • 57 (a)
OneToOne
M03F8.3 38
  • 62 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CLF1 37
  • 38 (a)
OneToOne
CLF1 39
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.10127 36
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G41770 36
  • 60.25 (n)
  • 60.46 (a)
barley
(Hordeum vulgare)
Liliopsida Hv.10575 36
rice
(Oryza sativa)
Liliopsida Os.8927 36
Os05g0289400 36
  • 60.42 (n)
  • 60.27 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU02717 36
  • 56.85 (n)
  • 55.66 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes cwf4 36
  • 58.04 (n)
  • 53 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.11208 36
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

ENSEMBL:
Gene Tree for CRNKL1 (if available)
TreeFam:
Gene Tree for CRNKL1 (if available)

Paralogs for CRNKL1 Gene

Selected 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
CRNKL1

Disorders for CRNKL1 Gene

Relevant External Links for CRNKL1

Genetic Association Database (GAD)
CRNKL1
Human Genome Epidemiology (HuGE) Navigator
CRNKL1
genes like me logo Genes that share disorders with CRNKL1: view

No data available for UniProtKB/Swiss-Prot 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 49
  2. Identification of the human crooked neck gene by comparative gene identification. (PMID: 11342225) Lai C.-H. … Lin W.-C. (Biochim. Biophys. Acta 2001) 3 4
  3. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4
  4. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. (PMID: 11991638) Jurica M.S. … Moore M.J. (RNA 2002) 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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