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rs4226440 SNP Detail
Summary
  • ID
    rs4226440
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr7:19242866 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GGCGGCGTAT GGCGGACGCG
    GTGCTATTCG AGTTTCTGCA CACCGAGATG GTGGCGGAGC TGTGGGCCCC GGACCCGGAC
    CCAGGCTCGG GGGTGAGCGG CACGCCGTGG CCTCGGGGTG GAGAAGTGGG GTGTGATCGA
    GCCTTATGGC AGGTCATTGC TGAGGCGGAG CGAGATGACT TGGGTCAAGG CGCTCAGTTC
    Y
    AGGCCTCGTC CTGGGGCGCC GTTGATAATT AGGGTAATTG GCTGTTATTG GGCTCAGATG
    AGGGCTCGCC TCACCACCCA CTTAGTATGC AACTCAACAT CTTTAATCTT CCTATCCTTC
    CGTTTCCTCC TTAGAAAATG CACCCTCAAC CATACCCGGT CTCATCTGTC CCCTCTGCCT
    GTGTGCTGGA TAAAGTGCGT                                            
    
    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
129/Sv
129X1/SvJ
A/J
BALB/cByJ
C3H/HeJ
C57BL/6J
CAST/EiJ
DBA/2J
SPRET/EiJ
ss6389433 AI480686_60 TWGNF TWGNF-Mouse f SNP C T T C T T T C
ss46031227 mCV25050725 ABI CRAMUS_MOUSE f SNP C T T T
ss148477884 ENSMUSSNP3708769 ENSEMBL ENSEMBL_Sanger f SNP C T T
SNP Consensus Information
SNP Consensus Type
129/Sv
129X1/SvJ
A/J
BALB/cByJ
C3H/HeJ
C57BL/6J
CAST/EiJ
DBA/2J
SPRET/EiJ
rs4226440 SNP C C T T C T T T C
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
ss6389433 AI480686_60 TWGNF TWGNF-Mouse-2 f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr7:19242866 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Bloc1s3 biogenesis of lysosomal organelles complex-1, subunit 3 571 bp upstream
Cpgi18495 CpG island 18495 within coordinates
Gm74038 predicted gene, 74038 805 bp downstream
Rr167175 regulatory region 167175 within coordinates
Rr400150 regulatory region 400150 118 bp downstream
Trappc6a trafficking protein particle complex 6A within coordinates
Tssr64863 transcription start site region 64863 1581 bp downstream
Tssr64864 transcription start site region 64864 200 bp downstream
Tssr64865 transcription start site region 64865 187 bp downstream
Tssr64866 transcription start site region 64866 170 bp downstream
Tssr70925 transcription start site region 70925 637 bp upstream
Tssr70926 transcription start site region 70926 564 bp upstream
Tssr70927 transcription start site region 70927 552 bp upstream

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
12/10/2024
MGI 6.24
The Jackson Laboratory