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rs250216827 SNP Detail
Summary
  • ID
    rs250216827
  • Variation Type
    SNP
  • Alleles
    A/C
Genome Location and Flanking Sequence
  • Location
    Chr5:87842889 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                AGGATTCCAG TTCAGGAGAA
ATGACAGGCC CAAGAGATGG CACCACAGGG GGTTGAGCAA TAGGCTGGAT GTTTTGTGGG
ACGGGATTGC AAGAGATGGT TTGAGCCTGA GCATATGGAA AGGCCTGGGG CTGTGACTGG
ATGCTGGAGT GAACTTTAGC CTGGAGCACA TCCTAGGAAG AAAAGAACCG TTAGTCCACA
M
TTCAGCAAAG TCGACATTCT TTATTGATTA ATTAATAATC CTTTACCCAA TGATAAGCAA
AGGAATGAAC AACTACAAAA ACCTTCATTT GCTTAAAAAT CTACCATGTC CTAGGTGAAT
ACAGTAATTA ATGGCTTTAA ATCTAGCAGG TTGAAGTCTG ATGCAGAAGA ATTACTATAA
CTTTGAGAAC ACCCTGAAAT                                            

M = A/C

    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
ss365777290 MGP_WTSI_5_88124055 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 A C C C C C C C A 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
rs250216827 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 A C C C C C C C A 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
ss365777290 MGP_WTSI_5_88124055 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/C
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87842889 () 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 1052 bp distal
D5Mit16 DNA segment, Chr 5, Massachusetts Institute of Technology 16 1012 bp distal
D5Mit16.1 DNA segment, Chr 5, Massachusetts Institute of Technology 16.1 855 bp distal
D5Mit16.2 DNA segment, Chr 5, Massachusetts Institute of Technology 16.2 1167 bp distal
Tssr1529 transcription start site region 1529 469 bp downstream
Tssr46883 transcription start site region 46883 519 bp downstream
Tssr46884 transcription start site region 46884 504 bp downstream
Tssr46885 transcription start site region 46885 483 bp downstream
Tssr46886 transcription start site region 46886 453 bp downstream
Tssr46887 transcription start site region 46887 436 bp downstream
Tssr46888 transcription start site region 46888 330 bp downstream
Tssr46889 transcription start site region 46889 311 bp downstream
Tssr46890 transcription start site region 46890 278 bp downstream
Tssr46891 transcription start site region 46891 265 bp downstream
Tssr46892 transcription start site region 46892 236 bp downstream
Tssr46893 transcription start site region 46893 210 bp downstream
Tssr46894 transcription start site region 46894 165 bp downstream
Tssr46895 transcription start site region 46895 145 bp downstream
Tssr46896 transcription start site region 46896 66 bp downstream
Tssr51618 transcription start site region 51618 490 bp upstream
Tssr51619 transcription start site region 51619 456 bp upstream
Tssr51620 transcription start site region 51620 446 bp upstream
Tssr51621 transcription start site region 51621 427 bp upstream
Tssr51622 transcription start site region 51622 391 bp upstream
Tssr51623 transcription start site region 51623 375 bp upstream
Tssr51624 transcription start site region 51624 358 bp upstream
Tssr51625 transcription start site region 51625 348 bp upstream
Tssr51626 transcription start site region 51626 336 bp upstream
Tssr51627 transcription start site region 51627 310 bp upstream
Tssr51628 transcription start site region 51628 200 bp upstream
Tssr51629 transcription start site region 51629 106 bp upstream
Tssr51630 transcription start site region 51630 58 bp upstream
Tssr51631 transcription start site region 51631 19 bp upstream
Tssr51632 transcription start site region 51632 238 bp downstream
Tssr51633 transcription start site region 51633 1023 bp downstream
Tssr51634 transcription start site region 51634 1145 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