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Crlf3 cytokine receptor-like factor 3 [ Mus musculus (house mouse) ]

Gene ID: 54394, updated on 12-May-2024

Summary

Official Symbol
Crlf3provided by MGI
Official Full Name
cytokine receptor-like factor 3provided by MGI
Primary source
MGI:MGI:1860086
See related
Ensembl:ENSMUSG00000017561 AllianceGenome:MGI:1860086
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Creme9; Cytor4
Summary
This gene encodes a cytokine receptor-like factor that contains a fibronectin type 3 domain. The encoded protein may act as a negative regulator of the cell cycle. There is a pseudogene for this gene on chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2013]
Expression
Broad expression in liver E14 (RPKM 9.6), liver E14.5 (RPKM 8.9) and 25 other tissues See more
Orthologs
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Genomic context

See Crlf3 in Genome Data Viewer
Location:
11 B5; 11 47.43 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (79937319..79971976, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (80046493..80081153, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_30132 Neighboring gene predicted gene, 30875 Neighboring gene SUZ12 polycomb repressive complex 2 subunit Neighboring gene STARR-positive B cell enhancer ABC_E9368 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:79881110-79881263 Neighboring gene STARR-seq mESC enhancer starr_30136 Neighboring gene ATPase family, AAA domain containing 5 Neighboring gene STARR-seq mESC enhancer starr_30137 Neighboring gene STARR-seq mESC enhancer starr_30138 Neighboring gene transcription elongation factor, mitochondrial

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
cytokine receptor-like factor 3
Names
cytokine receptor-like molecule 9
cytokine receptor-related factor 4

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_001277106.1NP_001264035.1  cytokine receptor-like factor 3 isoform 2

    See identical proteins and their annotated locations for NP_001264035.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK037880, AK137528, AL591113, AW986170
    Consensus CDS
    CCDS70260.1
    UniProtKB/Swiss-Prot
    Q9Z2L7
    Related
    ENSMUSP00000099523.4, ENSMUST00000103233.10
    Conserved Domains (2) summary
    cd00063
    Location:181267
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cl23765
    Location:17113
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
  2. NM_018776.2NP_061246.1  cytokine receptor-like factor 3 isoform 1

    See identical proteins and their annotated locations for NP_061246.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK037880, AK137528, AL591113, AW986170
    Consensus CDS
    CCDS25126.1
    UniProtKB/Swiss-Prot
    Q5SYK6, Q91W21, Q9R262, Q9Z2L7
    Related
    ENSMUSP00000060028.9, ENSMUST00000061283.15
    Conserved Domains (2) summary
    cd00063
    Location:181267
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cl23765
    Location:17113
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    79937319..79971976 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001780029.3 RNA Sequence

  2. XR_004936994.1 RNA Sequence