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rs242218399 SNP Detail
Summary
  • ID
    rs242218399
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr1:87054469 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                CGTGAACAAC TCATTCAGAA
GGCCCAGGAT CCGTCAGTGA CATACCTCAT GGGTAATGGC CCCACACTTC CTGCACTGGT
ACACCTCACA TGGCAACCAC TGATCCTCTG TGTATATATG TACCGTGACC CCACTGCCAA
GCTTGGTGGT CACCAGTATA TATTTTGGTT TTGTACCTCA GGCCTCTTTG AGCCTGTAGA
Y
ACAAAATTTG ATATTCAACG AGATCCCCTG ATGGACCCAT CTCTGAAGGA TATGACAGAG
GCGGCCGTGA AAGTGCTAAG CAGGAACCCC AAAGGCTTTT ATCTCTTTGT GGAGGGTGAG
TCTCCAAGCT CCCATGGAAA GAGGGGACAA TGGACAGGGA CAGGCTCAAG CTCACTGGCT
TCCTGCAGGG GGCCGAATCG                                            

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
129P2/OlaHsd
129S1/SvImJ
129S5/SvEvBrd
A/J
AKR/J
B10.RIII-H2 H2-T18/(71NS)SnJ
BALB/cByJ
BALB/cJ
BTBR T<+> Itpr3/J
BUB/BnJ
C3H/HeH
C3H/HeJ
C57BL/6J
C57BL/6NJ
C57BL/10J
C57BL/10SnJ
C57BR/cdJ
C57L/J
C58/J
CAST/EiJ
CBA/J
CE/J
CZECHII/EiJ
DBA/1J
DBA/2J
FVB/NJ
I/LnJ
JF1/MsJ
KK/HlJ
LEWES/EiJ
LG/J
LP/J
MA/MyJ
MOLF/EiJ
NOD/ShiLtJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SM/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss350380316 MGP_WTSI_1_89023322 EVA_MGPV3 EVA_MGPV3 f SNP C C C C C C C C C C C C C C C C C C C T C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C
SNP Consensus Information
SNP Consensus Type
129P2/OlaHsd
129S1/SvImJ
129S5/SvEvBrd
A/J
AKR/J
B10.RIII-H2 H2-T18/(71NS)SnJ
BALB/cByJ
BALB/cJ
BTBR T<+> Itpr3/J
BUB/BnJ
C3H/HeH
C3H/HeJ
C57BL/6J
C57BL/6NJ
C57BL/10J
C57BL/10SnJ
C57BR/cdJ
C57L/J
C58/J
CAST/EiJ
CBA/J
CE/J
CZECHII/EiJ
DBA/1J
DBA/2J
FVB/NJ
I/LnJ
JF1/MsJ
KK/HlJ
LEWES/EiJ
LG/J
LP/J
MA/MyJ
MOLF/EiJ
NOD/ShiLtJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SM/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs242218399 SNP C C C C C C C C C C C C C C C C C C C T C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C 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
ss350380316 MGP_WTSI_1_89023322 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr1:87054469 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Akp3 alkaline phosphatase 3, intestine, not Mn requiring within coordinates
Cpgi518 CpG island 518 363 bp proximal
Rr17963 regulatory region 17963 132 bp proximal
Tssr145 transcription start site region 145 395 bp downstream
Tssr146 transcription start site region 146 841 bp upstream
Tssr147 transcription start site region 147 1193 bp downstream
Tssr148 transcription start site region 148 1855 bp upstream
Tssr7781 transcription start site region 7781 1787 bp downstream
Tssr7782 transcription start site region 7782 1344 bp downstream
Tssr7783 transcription start site region 7783 1051 bp downstream
Tssr7784 transcription start site region 7784 809 bp downstream
Tssr7785 transcription start site region 7785 770 bp downstream
Tssr7786 transcription start site region 7786 743 bp downstream
Tssr7787 transcription start site region 7787 414 bp downstream
Tssr7788 transcription start site region 7788 16 bp downstream
Tssr7789 transcription start site region 7789 8 bp upstream
Tssr7790 transcription start site region 7790 62 bp upstream
Tssr7791 transcription start site region 7791 186 bp upstream
Tssr7792 transcription start site region 7792 214 bp upstream
Tssr7793 transcription start site region 7793 227 bp upstream
Tssr7794 transcription start site region 7794 244 bp upstream
Tssr7795 transcription start site region 7795 270 bp upstream
Tssr7796 transcription start site region 7796 293 bp upstream
Tssr7797 transcription start site region 7797 310 bp upstream
Tssr7798 transcription start site region 7798 347 bp upstream
Tssr7799 transcription start site region 7799 583 bp upstream
Tssr7800 transcription start site region 7800 602 bp upstream
Tssr7801 transcription start site region 7801 661 bp upstream
Tssr7802 transcription start site region 7802 788 bp upstream
Tssr7803 transcription start site region 7803 849 bp upstream
Tssr7804 transcription start site region 7804 873 bp upstream
Tssr7805 transcription start site region 7805 947 bp upstream
Tssr7806 transcription start site region 7806 961 bp upstream
Tssr7807 transcription start site region 7807 981 bp upstream
Tssr7808 transcription start site region 7808 1086 bp upstream
Tssr7809 transcription start site region 7809 1156 bp upstream
Tssr7810 transcription start site region 7810 1181 bp upstream
Tssr7811 transcription start site region 7811 1210 bp upstream
Tssr7812 transcription start site region 7812 1260 bp upstream
Tssr7813 transcription start site region 7813 1301 bp upstream
Tssr7814 transcription start site region 7814 1331 bp upstream
Tssr7815 transcription start site region 7815 1399 bp upstream
Tssr7816 transcription start site region 7816 1439 bp upstream
Tssr7817 transcription start site region 7817 1451 bp upstream
Tssr7818 transcription start site region 7818 1626 bp upstream
Tssr7819 transcription start site region 7819 1942 bp upstream
Tssr12838 transcription start site region 12838 1017 bp upstream
Tssr12839 transcription start site region 12839 1007 bp upstream
Tssr12840 transcription start site region 12840 998 bp upstream
Tssr12841 transcription start site region 12841 51 bp downstream
Tssr12842 transcription start site region 12842 377 bp downstream
Tssr12843 transcription start site region 12843 639 bp downstream
Tssr12844 transcription start site region 12844 830 bp downstream
Tssr12845 transcription start site region 12845 1001 bp downstream
Tssr12846 transcription start site region 12846 1062 bp downstream
Tssr12847 transcription start site region 12847 1533 bp downstream
Tssr12848 transcription start site region 12848 1602 bp downstream
Tssr12849 transcription start site region 12849 1621 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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Send questions and comments to User Support. 		last database update
12/10/2024
MGI 6.24 		The Jackson Laboratory