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rs257179580 SNP Detail
Summary
  • ID
    rs257179580
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr5:87842417 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TCATCTATTA TATAATGAGC
TATGTATGTA TTCTTTCAAT CTAGAGCTCT TGTTTCCTCT GTTATTGTCA CCATATATAC
ATTTTGAGGG GAATTAAAGG GAAGAAAATT TGAACTTACA GAAACGGAAT GTTGTGGAGT
GGCAGGGAAT TGGACGGTGG GGTTAAGAAG TTCTAGGTAC TGCAGAAGGT CTTGGACAGA
Y
ATATCTTGTG GAAGGAAGGG TGCTACTTGC TGCAGAAAGT ACAGAACTTT GGACTGAGGA
AGAGACAGCT GGGTCTGAGA AGAAACCAGG TGAGTCTGAG GAAAAGCCTG AACAACCTGT
GCCAGGAGCT GGACCAGAGA CTGAGGAAGG TGCAGATTAG CAAGACTGGC AAGGCTGGGG
ATTTGAGAGT TTATGAGGCG                                            

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
ss365777284 MGP_WTSI_5_88123583 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 C C C C C T 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
rs257179580 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 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
ss365777284 MGP_WTSI_5_88123583 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87842417 () 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 12 580 bp distal
D5Mit16 DNA segment, Chr 5, Massachusetts Institute of Technology 16 540 bp distal
D5Mit16.1 DNA segment, Chr 5, Massachusetts Institute of Technology 16.1 383 bp distal
D5Mit16.2 DNA segment, Chr 5, Massachusetts Institute of Technology 16.2 695 bp distal
Tssr1529 transcription start site region 1529 within coordinates
Tssr46883 transcription start site region 46883 47 bp downstream
Tssr46884 transcription start site region 46884 32 bp downstream
Tssr46885 transcription start site region 46885 11 bp downstream
Tssr46886 transcription start site region 46886 12 bp upstream
Tssr46887 transcription start site region 46887 29 bp upstream
Tssr46888 transcription start site region 46888 98 bp upstream
Tssr46889 transcription start site region 46889 147 bp upstream
Tssr46890 transcription start site region 46890 162 bp upstream
Tssr46891 transcription start site region 46891 206 bp upstream
Tssr46892 transcription start site region 46892 210 bp upstream
Tssr46893 transcription start site region 46893 238 bp upstream
Tssr46894 transcription start site region 46894 285 bp upstream
Tssr46895 transcription start site region 46895 308 bp upstream
Tssr46896 transcription start site region 46896 403 bp upstream
Tssr51613 transcription start site region 51613 1879 bp upstream
Tssr51614 transcription start site region 51614 1816 bp upstream
Tssr51615 transcription start site region 51615 1760 bp upstream
Tssr51616 transcription start site region 51616 1726 bp upstream
Tssr51617 transcription start site region 51617 1717 bp upstream
Tssr51618 transcription start site region 51618 18 bp upstream
Tssr51619 transcription start site region 51619 10 bp downstream
Tssr51620 transcription start site region 51620 19 bp downstream
Tssr51621 transcription start site region 51621 28 bp downstream
Tssr51622 transcription start site region 51622 66 bp downstream
Tssr51623 transcription start site region 51623 91 bp downstream
Tssr51624 transcription start site region 51624 109 bp downstream
Tssr51625 transcription start site region 51625 115 bp downstream
Tssr51626 transcription start site region 51626 125 bp downstream
Tssr51627 transcription start site region 51627 140 bp downstream
Tssr51628 transcription start site region 51628 181 bp downstream
Tssr51629 transcription start site region 51629 273 bp downstream
Tssr51630 transcription start site region 51630 367 bp downstream
Tssr51631 transcription start site region 51631 416 bp downstream
Tssr51632 transcription start site region 51632 710 bp downstream
Tssr51633 transcription start site region 51633 1495 bp downstream
Tssr51634 transcription start site region 51634 1617 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