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

Gene ID: 74013, updated on 21-Apr-2024

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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Alleles

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

General gene information

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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

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Preferred Names
raftlin-2
Names
raft-linking protein 2

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_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

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