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rs240714399 SNP Detail
Summary
  • ID
    rs240714399
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr5:87842971 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GGGATTGCAA GAGATGGTTT
GAGCCTGAGC ATATGGAAAG GCCTGGGGCT GTGACTGGAT GCTGGAGTGA ACTTTAGCCT
GGAGCACATC CTAGGAAGAA AAGAACCGTT AGTCCACACT TCAGCAAAGT CGACATTCTT
TATTGATTAA TTAATAATCC TTTACCCAAT GATAAGCAAA GGAATGAACA ACTACAAAAA
Y
CTTCATTTGC TTAAAAATCT ACCATGTCCT AGGTGAATAC AGTAATTAAT GGCTTTAAAT
CTAGCAGGTT GAAGTCTGAT GCAGAAGAAT TACTATAACT TTGAGAACAC CCTGAAATAA
AAGGTAAATT CTAGGCAATC CTGGGGTACA GATTAAGGCC CTTTTTTTTT AAAGATACAC
AAAGCAAGAA AGCATTGTCT                                            

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
ss365777292 MGP_WTSI_5_88124137 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 T C C C C C C C C 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
rs240714399 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 T C C C C C C C C 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
ss365777292 MGP_WTSI_5_88124137 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr5:87842971 () 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 1134 bp distal
D5Mit16 DNA segment, Chr 5, Massachusetts Institute of Technology 16 1094 bp distal
D5Mit16.1 DNA segment, Chr 5, Massachusetts Institute of Technology 16.1 937 bp distal
D5Mit16.2 DNA segment, Chr 5, Massachusetts Institute of Technology 16.2 1249 bp distal
Tssr1529 transcription start site region 1529 551 bp downstream
Tssr46883 transcription start site region 46883 601 bp downstream
Tssr46884 transcription start site region 46884 586 bp downstream
Tssr46885 transcription start site region 46885 565 bp downstream
Tssr46886 transcription start site region 46886 535 bp downstream
Tssr46887 transcription start site region 46887 518 bp downstream
Tssr46888 transcription start site region 46888 412 bp downstream
Tssr46889 transcription start site region 46889 393 bp downstream
Tssr46890 transcription start site region 46890 360 bp downstream
Tssr46891 transcription start site region 46891 347 bp downstream
Tssr46892 transcription start site region 46892 318 bp downstream
Tssr46893 transcription start site region 46893 292 bp downstream
Tssr46894 transcription start site region 46894 247 bp downstream
Tssr46895 transcription start site region 46895 227 bp downstream
Tssr46896 transcription start site region 46896 148 bp downstream
Tssr51618 transcription start site region 51618 572 bp upstream
Tssr51619 transcription start site region 51619 538 bp upstream
Tssr51620 transcription start site region 51620 528 bp upstream
Tssr51621 transcription start site region 51621 509 bp upstream
Tssr51622 transcription start site region 51622 473 bp upstream
Tssr51623 transcription start site region 51623 457 bp upstream
Tssr51624 transcription start site region 51624 440 bp upstream
Tssr51625 transcription start site region 51625 430 bp upstream
Tssr51626 transcription start site region 51626 418 bp upstream
Tssr51627 transcription start site region 51627 392 bp upstream
Tssr51628 transcription start site region 51628 282 bp upstream
Tssr51629 transcription start site region 51629 188 bp upstream
Tssr51630 transcription start site region 51630 140 bp upstream
Tssr51631 transcription start site region 51631 101 bp upstream
Tssr51632 transcription start site region 51632 156 bp downstream
Tssr51633 transcription start site region 51633 941 bp downstream
Tssr51634 transcription start site region 51634 1063 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