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rs249982466 SNP Detail
Summary
  • ID
    rs249982466
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr5:87840725 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATAGGTTCTC AAAGAAAAAA
AATAGAAAAT CCAATTTTTC ACAAACTATT TTGTATACAT TATTGACTTG CATTTTCAAC
TCCATATTGA ACACTTATAA AATTCCTGTA ATATAACTGA GAAGCATATA GAGTCCATGG
GTCGAATTCA AATGAATGCC ATATAATACA TAGAATAAAT AAAAGAATAC ATTTTCTTTT
Y
TTCCATGTAG ATTAATTCAG AAATATATCA TTTTTGTAGC ATGATCCAAA GGTGAAAAGA
TTTGTACATT TCCAGTTTCA GTCAGTTCTG TGAAAGAAAG ATGTATAATC ATTTCTGTTG
TGTTAAATCA GTGATTCCCA ACATTCCCTT TAATACTGCT CCTCGTGTTT TGGTGACCCC
CCAACCATAA AATTATATAC                                            

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
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
LP/J
MA/MyJ
MOLF/EiJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RIIIS/J
SEA/GnJ
SJL/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss365777253 MGP_WTSI_5_88121891 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 C C C C C C C C C C C C C C C C C C C C C C C C T C C C T
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
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
LP/J
MA/MyJ
MOLF/EiJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RIIIS/J
SEA/GnJ
SJL/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs249982466 SNP 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 C C C C C C C C C C T C C C T
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
ss365777253 MGP_WTSI_5_88121891 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87840725 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Csn2 casein beta within coordinates
D5Mit12 DNA segment, Chr 5, Massachusetts Institute of Technology 12 996 bp proximal
D5Mit16 DNA segment, Chr 5, Massachusetts Institute of Technology 16 1002 bp proximal
D5Mit16.1 DNA segment, Chr 5, Massachusetts Institute of Technology 16.1 1102 bp proximal
D5Mit16.2 DNA segment, Chr 5, Massachusetts Institute of Technology 16.2 800 bp proximal
Tssr1529 transcription start site region 1529 1688 bp upstream
Tssr46883 transcription start site region 46883 1635 bp upstream
Tssr46884 transcription start site region 46884 1648 bp upstream
Tssr46885 transcription start site region 46885 1676 bp upstream
Tssr46886 transcription start site region 46886 1704 bp upstream
Tssr46887 transcription start site region 46887 1721 bp upstream
Tssr46888 transcription start site region 46888 1790 bp upstream
Tssr46889 transcription start site region 46889 1839 bp upstream
Tssr46890 transcription start site region 46890 1854 bp upstream
Tssr46891 transcription start site region 46891 1898 bp upstream
Tssr46892 transcription start site region 46892 1902 bp upstream
Tssr46893 transcription start site region 46893 1930 bp upstream
Tssr46894 transcription start site region 46894 1977 bp upstream
Tssr46895 transcription start site region 46895 2000 bp upstream
Tssr51613 transcription start site region 51613 187 bp upstream
Tssr51614 transcription start site region 51614 124 bp upstream
Tssr51615 transcription start site region 51615 68 bp upstream
Tssr51616 transcription start site region 51616 34 bp upstream
Tssr51617 transcription start site region 51617 25 bp upstream
Tssr51618 transcription start site region 51618 1664 bp downstream
Tssr51619 transcription start site region 51619 1702 bp downstream
Tssr51620 transcription start site region 51620 1711 bp downstream
Tssr51621 transcription start site region 51621 1720 bp downstream
Tssr51622 transcription start site region 51622 1758 bp downstream
Tssr51623 transcription start site region 51623 1783 bp downstream
Tssr51624 transcription start site region 51624 1801 bp downstream
Tssr51625 transcription start site region 51625 1807 bp downstream
Tssr51626 transcription start site region 51626 1817 bp downstream
Tssr51627 transcription start site region 51627 1832 bp downstream
Tssr51628 transcription start site region 51628 1873 bp downstream
Tssr51629 transcription start site region 51629 1965 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
12/17/2024
MGI 6.24 		The Jackson Laboratory