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rs235600143 SNP Detail
Summary
  • ID
    rs235600143
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr5:87844216 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATTGATATGT TCAACAGATT
CCTGCAGAAA AGAAAAAGAA TCATTTAGTT TTAGTGAATA CATAGTATTT TTCAATATAC
AATGATAATT AAGGTATTTA GTAAGTTATA TTAGCAGGTT ATTAATATAA TATATAATGG
GACATTTGAT GAAACTTACA TTTAAATTAT TTAAAACACA TTGTATAAGC CTACTGTTTA
Y
AAGAAAAGTG AGTGCAGTCC AGAGAGAAAA AGAAATTAGT GAGCAGAGTA TACAAAGAGA
CATCTAAACA ATGCTAATTC TTTCTCTGTC TACAGGTGAA CTTTAAATTC CATTCTTAAA
TCAAAACACA CAAACATAAT GGAAAATACA GACTAATGGC AATATATTAC AGTAGTCACT
ATGAGTTTGC TTGCTACTAT                                            

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
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
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss365777315 MGP_WTSI_5_88125382 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 T 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 C
SNP Consensus Information
SNP Consensus Type
129P2/OlaHsd
129S1/SvImJ
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
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs235600143 SNP 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 C C C C C C C C C C C C C C C C C C C C T 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
ss365777315 MGP_WTSI_5_88125382 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87844216 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Csn2 casein beta within coordinates
Tssr1529 transcription start site region 1529 1796 bp downstream
Tssr46883 transcription start site region 46883 1846 bp downstream
Tssr46884 transcription start site region 46884 1831 bp downstream
Tssr46885 transcription start site region 46885 1810 bp downstream
Tssr46886 transcription start site region 46886 1780 bp downstream
Tssr46887 transcription start site region 46887 1763 bp downstream
Tssr46888 transcription start site region 46888 1657 bp downstream
Tssr46889 transcription start site region 46889 1638 bp downstream
Tssr46890 transcription start site region 46890 1605 bp downstream
Tssr46891 transcription start site region 46891 1592 bp downstream
Tssr46892 transcription start site region 46892 1563 bp downstream
Tssr46893 transcription start site region 46893 1537 bp downstream
Tssr46894 transcription start site region 46894 1492 bp downstream
Tssr46895 transcription start site region 46895 1472 bp downstream
Tssr46896 transcription start site region 46896 1393 bp downstream
Tssr51618 transcription start site region 51618 1817 bp upstream
Tssr51619 transcription start site region 51619 1783 bp upstream
Tssr51620 transcription start site region 51620 1773 bp upstream
Tssr51621 transcription start site region 51621 1754 bp upstream
Tssr51622 transcription start site region 51622 1718 bp upstream
Tssr51623 transcription start site region 51623 1702 bp upstream
Tssr51624 transcription start site region 51624 1685 bp upstream
Tssr51625 transcription start site region 51625 1675 bp upstream
Tssr51626 transcription start site region 51626 1663 bp upstream
Tssr51627 transcription start site region 51627 1637 bp upstream
Tssr51628 transcription start site region 51628 1527 bp upstream
Tssr51629 transcription start site region 51629 1433 bp upstream
Tssr51630 transcription start site region 51630 1385 bp upstream
Tssr51631 transcription start site region 51631 1346 bp upstream
Tssr51632 transcription start site region 51632 1087 bp upstream
Tssr51633 transcription start site region 51633 283 bp upstream
Tssr51634 transcription start site region 51634 178 bp upstream
Tssr51635 transcription start site region 51635 782 bp downstream
Tssr51636 transcription start site region 51636 808 bp downstream
Tssr51637 transcription start site region 51637 921 bp downstream
Tssr51638 transcription start site region 51638 1697 bp downstream
Tssr51639 transcription start site region 51639 1704 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