U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rftn2 raftlin family member 2 [ Mus musculus (house mouse) ]

    Gene ID: 74013, updated on 30-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Rftn2provided by MGI
    Official Full Name
    raftlin family member 2provided by MGI
    Primary source
    MGI:MGI:1921263
    See related
    Ensembl:ENSMUSG00000025978 AllianceGenome:MGI:1921263
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2700010E02Rik; 3222401M22Rik
    Summary
    Acts upstream of or within dsRNA transport and response to exogenous dsRNA. Predicted to be located in plasma membrane. Orthologous to human RFTN2 (raftlin family member 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in limb E14.5 (RPKM 6.6), frontal lobe adult (RPKM 4.5) and 20 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    1 C1.2; 1 28.05 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (55209318..55267128, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (55170159..55227063, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene MOB family member 4, phocein Neighboring gene ATP synthase, H+ transporting, mitochondrial F0 complex, subunit g pseudogene Neighboring gene STARR-seq mESC enhancer starr_00949 Neighboring gene STARR-positive B cell enhancer ABC_E11071 Neighboring gene STARR-positive B cell enhancer ABC_E4316 Neighboring gene predicted gene 10561 Neighboring gene methionine-tRNA synthetase 2 (mitochondrial) Neighboring gene boule homolog, RNA binding protein Neighboring gene STARR-seq mESC enhancer starr_00956 Neighboring gene predicted gene 8292

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. ELAC2 Functions as a Key Gene in the Early Development of Placental Formation Based on WGCNA. Liang J, et al. Cells, 2023 Feb 14. PMID 36831280, Free PMC Article
    2. Radial glia require PDGFD-PDGFRβ signalling in human but not mouse neocortex. Lui JH, et al. Nature, 2014 Nov 13. PMID 25391964, Free PMC Article
    3. Raftlin is involved in the nucleocapture complex to induce poly(I:C)-mediated TLR3 activation. Watanabe A, et al. J Biol Chem, 2011 Mar 25. PMID 21266579, Free PMC Article
    4. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    5. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • KIAA0084

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within dsRNA transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to exogenous dsRNA IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    raftlin-2
    Names
    raft-linking protein 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001356287.1 → NP_001343216.1  raftlin-2 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' coding region which results in a frameshift and the use of an alternate start codon, compared to variant 1. The encoded isoform (2) has a shorter and distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AC122223, AC122889
      Conserved Domains (1) summary
      pfam15250
      Location:8 → 331
      Raftlin; Raftlin

    2. NM_001356288.1 → NP_001343217.1  raftlin-2 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks exons in its 5' UTR and 5' coding region, and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) his shorter than isoform 1.
      Source sequence(s)
      AC122223, AC122889
      Conserved Domains (1) summary
      pfam15250
      Location:1 → 316
      Raftlin; Raftlin

    3. NM_028713.1 → NP_082989.1  raftlin-2 isoform 1

      See identical proteins and their annotated locations for NP_082989.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      BC038341
      Consensus CDS
      CCDS14962.1
      UniProtKB/Swiss-Prot
      Q8CHX7, Q8R306, Q9CXJ5
      Related
      ENSMUSP00000027121.9, ENSMUST00000027121.15
      Conserved Domains (1) summary
      pfam15250
      Location:1 → 438
      Raftlin; Raftlin

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      55209318..55267128 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011238612.4 → XP_011236914.1  raftlin-2 isoform X5

      Conserved Domains (1) summary
      pfam15250
      Location:8 → 304
      Raftlin

    2. XM_006496309.5 → XP_006496372.1  raftlin-2 isoform X4

      Conserved Domains (1) summary
      pfam15250
      Location:2 → 341
      Raftlin

    3. XM_006496308.5 → XP_006496371.1  raftlin-2 isoform X1

      Conserved Domains (1) summary
      pfam15250
      Location:1 → 464
      Raftlin

    4. XM_036153855.1 → XP_036009748.1  raftlin-2 isoform X3

      Conserved Domains (1) summary
      pfam15250
      Location:1 → 410
      Raftlin

    5. XM_011238610.4 → XP_011236912.1  raftlin-2 isoform X2

      Conserved Domains (1) summary
      pfam15250
      Location:1 → 436
      Raftlin
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CHX7.3 GenPept UniProtKB/Swiss-Prot:Q8CHX7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous