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rs49852406 SNP Detail
Summary
  • ID
    rs49852406
  • Variation Type
    SNP
  • Alleles
    A/G
Genome Location and Flanking Sequence
  • Location
    Chr3:79049989 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                AACAGCCAAC TAAAAAGCAC
    TACATGAAAG CAAAGCAGCC CTGGGCCGAT GGATTTCTGT AACTATCTTC TTGTTATCAA
    TGGGCCCCAC AGAGACGGGC TAGGGATGAG GAAATACACA AAATTCAAGT GGTTTAAAAG
    CTCAAAAGGT TAAATAAGAT TTCGCTAAGC CCAAAAGCCA ATTCACTGAG AATGTTAAGA
    R
    TGTTCACTAT ACATCGACTT TGGGCCAAGC AACGGAGATG TCCACCGAGT GAGGCAGGAA
    ATAAAGAATA AAACCTGTAT GATGTGGAAG ACCCTTACAA AGCACGGTAA CTGAGTCCCT
    CAAACAAGGT TTTCACTGTC TCGGTACCAT CCTTCCTTCT ACAGTCCCGT GGGGGGTGGG
    GCCAGACTGT ACAGAGAAGC                                            
    
    R = A/G
    

    Note: Sequence in lower case indicates low-complexity or repetitive sequence
    BLAST SNP flanking sequence against the mouse Genome
SNP Assays
and
SNP Consensus
Strain alleles of submitted assays, and consensus values for this SNP
Legend
Assay ID Submitter
SNP ID
Submitter
Handle
Population
ss orientation
Variation Type
BALB/cByJ
BTBR T<+> Itpr3/J
KK/HlJ
MOLF/EiJ
PWD/PhJ
ss60421108 NES15922968 PERLEGEN MM_PANEL2 f SNP A A A G G
SNP Consensus Information
SNP Consensus Type
BALB/cByJ
BTBR T<+> Itpr3/J
KK/HlJ
MOLF/EiJ
PWD/PhJ
rs49852406 SNP A A A G G
Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter
Assay ID Submitter
SNP ID
Submitter
Handle
Population
ss orientation
Variation
Type
Alleles
ss60421108 NES15922968 PERLEGEN MM_PANEL f SNP A/G
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:79049989 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Rapgef2 Rap guanine nucleotide exchange factor (GEF) 2 Intron
mRNA-UTR
Noncoding-Transcript-Variant
Rr578466 regulatory region 578466 1457 bp proximal
Tssr33629 transcription start site region 33629 1851 bp upstream
Tssr33630 transcription start site region 33630 282 bp downstream
Tssr33631 transcription start site region 33631 1724 bp downstream

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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last database update
03/18/2025
MGI 6.24
The Jackson Laboratory