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rs49203990 SNP Detail
Summary
  • ID
    rs49203990
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr3:89155587 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                          GCTAG CGCGATCTAC AGAGCAAGTT
    Y
    CAGGACAGCC AGAGCTACAC AGTGA                                      
    
    Y = C/T
    

    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
129X1/SvJ
A/J
DBA/2J
LG/J
SM/J
ss135474278 ENSMUSSNP994861 ENSEMBL ENSEMBL_Sanger f SNP C T C
ss320836904 CHEV_3_89052202 CHEVERUD SCREENING_POP f SNP T C
SNP Consensus Information
SNP Consensus Type
129X1/SvJ
A/J
DBA/2J
LG/J
SM/J
rs49203990 SNP C T C T C
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:89155587 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi13413 CpG island 13413 1356 bp distal
Krtcap2 keratinocyte associated protein 2 Intron
Rr579998 regulatory region 579998 1836 bp distal
Rr579999 regulatory region 579999 1896 bp distal
Rr580000 regulatory region 580000 1713 bp distal
Rr580001 regulatory region 580001 1973 bp proximal
Trim46 tripartite motif-containing 46 1971 bp upstream
Tssr30085 transcription start site region 30085 1787 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
03/25/2025
MGI 6.24
The Jackson Laboratory