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crnkl1 crooked neck pre-mRNA splicing factor 1 [ Danio rerio (zebrafish) ]

Gene ID: 393920, updated on 27-Mar-2024

Summary

Official Symbol
crnkl1provided by ZNC
Official Full Name
crooked neck pre-mRNA splicing factor 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-694
See related
Ensembl:ENSDARG00000007901 AllianceGenome:ZFIN:ZDB-GENE-040426-694
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
zgc:55327
Summary
Predicted to be involved in spliceosomal complex assembly. Predicted to act upstream of or within RNA processing. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. 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]
Orthologs
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Genomic context

See crnkl1 in Genome Data Viewer
Location:
chromosome: 20
Exon count:
14
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (49081967..49103320)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (49274034..49293902)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene cilia and flagella associated protein 61 Neighboring gene 5'-3' exoribonuclease 2 Neighboring gene uncharacterized LOC110438201 Neighboring gene uncharacterized LOC110438204 Neighboring gene microRNA mir-2193 Neighboring gene N-alpha-acetyltransferase 20, NatB catalytic subunit Neighboring gene CD109 molecule

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Clone Names

  • MGC55327

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
acts_upstream_of_or_within RNA 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 IEA
Inferred from Electronic Annotation
more info
 
involved_in spliceosomal complex assembly IBA
Inferred from Biological aspect of Ancestor
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 post-mRNA release spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
crooked neck-like protein 1
Names
crooked neck pre-mRNA splicing factor-like 1

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_200946.1NP_957240.1  crooked neck-like protein 1

    See identical proteins and their annotated locations for NP_957240.1

    Status: PROVISIONAL

    Source sequence(s)
    BC044369
    UniProtKB/TrEMBL
    A0A8M1PFB6, E7FGM7, Q803R7
    Related
    ENSDARP00000100660.3, ENSDART00000112689.4
    Conserved Domains (4) summary
    pfam02184
    Location:195226
    HAT; HAT (Half-A-TPR) repeat
    smart00386
    Location:94126
    HAT; HAT (Half-A-TPR) repeats
    sd00006
    Location:83108
    TPR; TPR repeat [structural motif]
    pfam05843
    Location:231321
    Suf; Suppressor of forked protein (Suf)

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007131.7 Reference GRCz11 Primary Assembly

    Range
    49081967..49103320
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)