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rs223000613 SNP Detail
Summary
  • ID
    rs223000613
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr1:87054233 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TGATCCTTGG TGGGGGCCGA
AAATACATGT TTCCTGCTGG AACCCCAGAC CCCGAGTATC CAAATGATGC TAATGAGACT
GGAACCAGAT TGGATGGCAG GAATCTGGTG CAGGAATGGC TGTCAAAGCA CCAGGTGACC
GACTGCAGAA TATTAGTGAT ACAGTGGAGA CCAGGGAAGG GCTTTGGACC TTACCAGTTG
Y
TTATGTCCCT CTAGGGATCC CAGTATGTTT GGAATCGTGA ACAACTCATT CAGAAGGCCC
AGGATCCGTC AGTGACATAC CTCATGGGTA ATGGCCCCAC ACTTCCTGCA CTGGTACACC
TCACATGGCA ACCACTGATC CTCTGTGTAT ATATGTACCG TGACCCCACT GCCAAGCTTG
GTGGTCACCA GTATATATTT                                            

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
ss350380312 MGP_WTSI_1_89023086 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
rs223000613 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
ss350380312 MGP_WTSI_1_89023086 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr1:87054233 () 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 518 599 bp proximal
Rr17963 regulatory region 17963 368 bp proximal
Tssr145 transcription start site region 145 159 bp downstream
Tssr146 transcription start site region 146 1077 bp upstream
Tssr147 transcription start site region 147 1429 bp downstream
Tssr7781 transcription start site region 7781 1551 bp downstream
Tssr7782 transcription start site region 7782 1108 bp downstream
Tssr7783 transcription start site region 7783 815 bp downstream
Tssr7784 transcription start site region 7784 573 bp downstream
Tssr7785 transcription start site region 7785 534 bp downstream
Tssr7786 transcription start site region 7786 507 bp downstream
Tssr7787 transcription start site region 7787 178 bp downstream
Tssr7788 transcription start site region 7788 214 bp upstream
Tssr7789 transcription start site region 7789 244 bp upstream
Tssr7790 transcription start site region 7790 298 bp upstream
Tssr7791 transcription start site region 7791 422 bp upstream
Tssr7792 transcription start site region 7792 450 bp upstream
Tssr7793 transcription start site region 7793 463 bp upstream
Tssr7794 transcription start site region 7794 480 bp upstream
Tssr7795 transcription start site region 7795 506 bp upstream
Tssr7796 transcription start site region 7796 529 bp upstream
Tssr7797 transcription start site region 7797 546 bp upstream
Tssr7798 transcription start site region 7798 583 bp upstream
Tssr7799 transcription start site region 7799 819 bp upstream
Tssr7800 transcription start site region 7800 838 bp upstream
Tssr7801 transcription start site region 7801 897 bp upstream
Tssr7802 transcription start site region 7802 1024 bp upstream
Tssr7803 transcription start site region 7803 1085 bp upstream
Tssr7804 transcription start site region 7804 1109 bp upstream
Tssr7805 transcription start site region 7805 1183 bp upstream
Tssr7806 transcription start site region 7806 1197 bp upstream
Tssr7807 transcription start site region 7807 1217 bp upstream
Tssr7808 transcription start site region 7808 1322 bp upstream
Tssr7809 transcription start site region 7809 1392 bp upstream
Tssr7810 transcription start site region 7810 1417 bp upstream
Tssr7811 transcription start site region 7811 1446 bp upstream
Tssr7812 transcription start site region 7812 1496 bp upstream
Tssr7813 transcription start site region 7813 1537 bp upstream
Tssr7814 transcription start site region 7814 1567 bp upstream
Tssr7815 transcription start site region 7815 1635 bp upstream
Tssr7816 transcription start site region 7816 1675 bp upstream
Tssr7817 transcription start site region 7817 1687 bp upstream
Tssr7818 transcription start site region 7818 1862 bp upstream
Tssr12838 transcription start site region 12838 781 bp upstream
Tssr12839 transcription start site region 12839 771 bp upstream
Tssr12840 transcription start site region 12840 762 bp upstream
Tssr12841 transcription start site region 12841 287 bp downstream
Tssr12842 transcription start site region 12842 613 bp downstream
Tssr12843 transcription start site region 12843 875 bp downstream
Tssr12844 transcription start site region 12844 1066 bp downstream
Tssr12845 transcription start site region 12845 1237 bp downstream
Tssr12846 transcription start site region 12846 1298 bp downstream
Tssr12847 transcription start site region 12847 1769 bp downstream
Tssr12848 transcription start site region 12848 1838 bp downstream
Tssr12849 transcription start site region 12849 1857 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