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rs258475272 SNP Detail
Summary
  • ID
    rs258475272
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr5:87842110 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                AACAGCAGTA TGTGAATAAT
ATATGAGCTT AAACAAATTT TAGATCTCTA CAGAAGAAAA TTTTGTTACC AAAATCTAAT
AAGATTGGCA GATTTAATTG TGGTTTAGTC GAGCTTAATA TCCTGTGTCA GAATTCCAAA
TATACCAATT AAATCATTGT TCTTGTAATT ATCTGACATC AACATGCAAT TCCTTTTACC
Y
AGTTAACCAG TTATATCAGA ACTAACTGTA ACTAGGCAGT AGGCGCTGGG AATTAGATTT
AAATGAAGAT CTGCAGGTGA TTTTGTTTTA TAGCTAACCC TATGAATCAT CTATTATATA
ATGAGCTATG TATGTATTCT TTCAATCTAG AGCTCTTGTT TCCTCTGTTA TTGTCACCAT
ATATACATTT TGAGGGGAAT                                            

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
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
ss365777279 MGP_WTSI_5_88123276 EVA_MGPV3 EVA_MGPV3 f SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T T T T T T T T T
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
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
rs258475272 SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T T T T T T T T 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
ss365777279 MGP_WTSI_5_88123276 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87842110 () 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 12 273 bp distal
D5Mit16 DNA segment, Chr 5, Massachusetts Institute of Technology 16 233 bp distal
D5Mit16.1 DNA segment, Chr 5, Massachusetts Institute of Technology 16.1 76 bp distal
D5Mit16.2 DNA segment, Chr 5, Massachusetts Institute of Technology 16.2 388 bp distal
Tssr1529 transcription start site region 1529 303 bp upstream
Tssr46883 transcription start site region 46883 250 bp upstream
Tssr46884 transcription start site region 46884 263 bp upstream
Tssr46885 transcription start site region 46885 291 bp upstream
Tssr46886 transcription start site region 46886 319 bp upstream
Tssr46887 transcription start site region 46887 336 bp upstream
Tssr46888 transcription start site region 46888 405 bp upstream
Tssr46889 transcription start site region 46889 454 bp upstream
Tssr46890 transcription start site region 46890 469 bp upstream
Tssr46891 transcription start site region 46891 513 bp upstream
Tssr46892 transcription start site region 46892 517 bp upstream
Tssr46893 transcription start site region 46893 545 bp upstream
Tssr46894 transcription start site region 46894 592 bp upstream
Tssr46895 transcription start site region 46895 615 bp upstream
Tssr46896 transcription start site region 46896 710 bp upstream
Tssr51613 transcription start site region 51613 1572 bp upstream
Tssr51614 transcription start site region 51614 1509 bp upstream
Tssr51615 transcription start site region 51615 1453 bp upstream
Tssr51616 transcription start site region 51616 1419 bp upstream
Tssr51617 transcription start site region 51617 1410 bp upstream
Tssr51618 transcription start site region 51618 279 bp downstream
Tssr51619 transcription start site region 51619 317 bp downstream
Tssr51620 transcription start site region 51620 326 bp downstream
Tssr51621 transcription start site region 51621 335 bp downstream
Tssr51622 transcription start site region 51622 373 bp downstream
Tssr51623 transcription start site region 51623 398 bp downstream
Tssr51624 transcription start site region 51624 416 bp downstream
Tssr51625 transcription start site region 51625 422 bp downstream
Tssr51626 transcription start site region 51626 432 bp downstream
Tssr51627 transcription start site region 51627 447 bp downstream
Tssr51628 transcription start site region 51628 488 bp downstream
Tssr51629 transcription start site region 51629 580 bp downstream
Tssr51630 transcription start site region 51630 674 bp downstream
Tssr51631 transcription start site region 51631 723 bp downstream
Tssr51632 transcription start site region 51632 1017 bp downstream
Tssr51633 transcription start site region 51633 1802 bp downstream
Tssr51634 transcription start site region 51634 1924 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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Funding Information
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Send questions and comments to User Support. 		last database update
12/10/2024
MGI 6.24 		The Jackson Laboratory