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rs253706793 SNP Detail
Summary
  • ID
    rs253706793
  • Variation Type
    SNP
  • Alleles
    A/G
Genome Location and Flanking Sequence
  • Location
    Chr19:5847865 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GCAGCAGATT GGAACAGTAC
TGCACATATT ACTTGCCAAA GAACAGACAT GACCTGAAGT CAAGACACCT GCATTCTGTG
TGGTCTGTAA AAAAAAAGCT AGAACAAGTA AGCCCCATCC CCCCCTCCCT CCACATTCCA
GGAAAAACAA ACTCACTGCA AGGTCTCACA TCACACACTC ACTAGCAGAA CAGAAGACAG
R
GGCAAGCGCT TATATGCAAA GTCCTGAGCA GCTCCATGAA GGATGAAATG AGGCTCTGCA
AAGGAAAACT CTTTAAACCC ACATGCCTGA CCCCACTCGT GGCTCAAGTG AGGTGACAAA
AGGCTAAAGT GGATGAGATG ATCGTAAGCA TTTAAACTCA ACATGCATAT TTGGAAATGT
GGGGGAAAAG TGTCTTACCC                                            

R = A/G

    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
ss401662572 MGP_WTSI_19_5797837 EVA_MGPV3 EVA_MGPV3 f SNP A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A G A A A A
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
rs253706793 SNP A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A A G A A A A
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
ss401662572 MGP_WTSI_19_5797837 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/G
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:5847865 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Gm55521 predicted gene, 55521 1163 bp downstream
Malat1 metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA) within coordinates
Mascrna Malat1-associated small cytoplasmic RNA 1856 bp upstream
Tssr5415 transcription start site region 5415 971 bp upstream
Tssr5416 transcription start site region 5416 522 bp upstream
Tssr5417 transcription start site region 5417 1189 bp downstream
Tssr5418 transcription start site region 5418 1672 bp downstream
Tssr157645 transcription start site region 157645 1456 bp upstream
Tssr157646 transcription start site region 157646 1354 bp upstream
Tssr157647 transcription start site region 157647 1267 bp upstream
Tssr157648 transcription start site region 157648 1100 bp upstream
Tssr157649 transcription start site region 157649 1008 bp upstream
Tssr157650 transcription start site region 157650 943 bp upstream
Tssr157651 transcription start site region 157651 873 bp upstream
Tssr157652 transcription start site region 157652 733 bp upstream
Tssr157653 transcription start site region 157653 649 bp upstream
Tssr157654 transcription start site region 157654 595 bp upstream
Tssr157655 transcription start site region 157655 569 bp upstream
Tssr157656 transcription start site region 157656 536 bp upstream
Tssr157657 transcription start site region 157657 416 bp upstream
Tssr157658 transcription start site region 157658 310 bp upstream
Tssr157659 transcription start site region 157659 206 bp upstream
Tssr157660 transcription start site region 157660 110 bp upstream
Tssr157661 transcription start site region 157661 77 bp upstream
Tssr157662 transcription start site region 157662 7 bp downstream
Tssr157663 transcription start site region 157663 66 bp downstream
Tssr157664 transcription start site region 157664 188 bp downstream
Tssr157665 transcription start site region 157665 195 bp downstream
Tssr157666 transcription start site region 157666 220 bp downstream
Tssr157667 transcription start site region 157667 473 bp downstream
Tssr157668 transcription start site region 157668 520 bp downstream
Tssr157669 transcription start site region 157669 535 bp downstream
Tssr157670 transcription start site region 157670 555 bp downstream
Tssr157671 transcription start site region 157671 572 bp downstream
Tssr157672 transcription start site region 157672 621 bp downstream
Tssr157673 transcription start site region 157673 638 bp downstream
Tssr157674 transcription start site region 157674 668 bp downstream
Tssr157675 transcription start site region 157675 687 bp downstream
Tssr157676 transcription start site region 157676 698 bp downstream
Tssr157677 transcription start site region 157677 720 bp downstream
Tssr157678 transcription start site region 157678 732 bp downstream
Tssr157679 transcription start site region 157679 769 bp downstream
Tssr157680 transcription start site region 157680 824 bp downstream
Tssr157681 transcription start site region 157681 853 bp downstream
Tssr157682 transcription start site region 157682 871 bp downstream
Tssr157683 transcription start site region 157683 897 bp downstream
Tssr157684 transcription start site region 157684 913 bp downstream
Tssr157685 transcription start site region 157685 923 bp downstream
Tssr157686 transcription start site region 157686 938 bp downstream
Tssr157687 transcription start site region 157687 1007 bp downstream
Tssr157688 transcription start site region 157688 1057 bp downstream
Tssr157689 transcription start site region 157689 1088 bp downstream
Tssr157690 transcription start site region 157690 1166 bp downstream
Tssr157691 transcription start site region 157691 1212 bp downstream
Tssr157692 transcription start site region 157692 1266 bp downstream
Tssr157693 transcription start site region 157693 1323 bp downstream
Tssr157694 transcription start site region 157694 1381 bp downstream
Tssr157695 transcription start site region 157695 1445 bp downstream
Tssr157696 transcription start site region 157696 1466 bp downstream
Tssr157697 transcription start site region 157697 1515 bp downstream
Tssr157698 transcription start site region 157698 1531 bp downstream
Tssr157699 transcription start site region 157699 1589 bp downstream
Tssr157700 transcription start site region 157700 1638 bp downstream
Tssr157701 transcription start site region 157701 1656 bp downstream
Tssr157702 transcription start site region 157702 1692 bp downstream
Tssr157703 transcription start site region 157703 1743 bp downstream
Tssr157704 transcription start site region 157704 1769 bp downstream
Tssr157705 transcription start site region 157705 1790 bp downstream
Tssr157706 transcription start site region 157706 1838 bp downstream
Tssr157707 transcription start site region 157707 1884 bp downstream
Tssr157708 transcription start site region 157708 1894 bp downstream
Tssr157709 transcription start site region 157709 1906 bp downstream
Tssr157710 transcription start site region 157710 1925 bp downstream
Tssr157711 transcription start site region 157711 1944 bp downstream
Tssr157712 transcription start site region 157712 1981 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