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rs245009563 SNP Detail
Summary
  • ID
    rs245009563
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr19:5846642 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TCAAGGATCC AGCTACTGGC
TGCATCAAGG TGAGGGGTGA AGGGTCTGTG ATTAGGCCAA AGGCCCATGG TGGCGATGTG
GCAGAGAAAT CACTTGTGGG GAGACCTTGT AACAGGATTC TGGAAAAGCT GGGGAAACTG
GTTGCCCGCT TTCCCCCTTT TCCCTCCCCT GCAAGCACAA CTTGAGGTTT GGGCTGGTAA
Y
CGCTGCTATA AAAACAGCCT TTTTTCCAGA TGTTAAAACA AGCCCAGGGC CTCTCAAGTA
TTTTCTTTGG ATGCTTCAAT TCCAACAAGG TGTTACGGTA GGGTAGTCCC CACTGCTAAT
CAAAACCGAC CATGATACCA CTTTGGTCTC GATACAATAC TGCTTGCTTG ATTCTTGCCA
CACAGGAAGG CTCCGCTGTC                                            

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
ss401662563 MGP_WTSI_19_5796614 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
rs245009563 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
ss401662563 MGP_WTSI_19_5796614 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:5846642 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Malat1 metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA) within coordinates
Mascrna Malat1-associated small cytoplasmic RNA 633 bp upstream
Rr543161 regulatory region 543161 840 bp proximal
Rr543162 regulatory region 543162 1946 bp proximal
Tssr5415 transcription start site region 5415 220 bp downstream
Tssr5416 transcription start site region 5416 696 bp downstream
Tssr157645 transcription start site region 157645 233 bp upstream
Tssr157646 transcription start site region 157646 131 bp upstream
Tssr157647 transcription start site region 157647 44 bp upstream
Tssr157648 transcription start site region 157648 97 bp downstream
Tssr157649 transcription start site region 157649 197 bp downstream
Tssr157650 transcription start site region 157650 256 bp downstream
Tssr157651 transcription start site region 157651 310 bp downstream
Tssr157652 transcription start site region 157652 447 bp downstream
Tssr157653 transcription start site region 157653 564 bp downstream
Tssr157654 transcription start site region 157654 607 bp downstream
Tssr157655 transcription start site region 157655 644 bp downstream
Tssr157656 transcription start site region 157656 674 bp downstream
Tssr157657 transcription start site region 157657 796 bp downstream
Tssr157658 transcription start site region 157658 848 bp downstream
Tssr157659 transcription start site region 157659 951 bp downstream
Tssr157660 transcription start site region 157660 1104 bp downstream
Tssr157661 transcription start site region 157661 1125 bp downstream
Tssr157662 transcription start site region 157662 1230 bp downstream
Tssr157663 transcription start site region 157663 1289 bp downstream
Tssr157664 transcription start site region 157664 1411 bp downstream
Tssr157665 transcription start site region 157665 1418 bp downstream
Tssr157666 transcription start site region 157666 1443 bp downstream
Tssr157667 transcription start site region 157667 1696 bp downstream
Tssr157668 transcription start site region 157668 1743 bp downstream
Tssr157669 transcription start site region 157669 1758 bp downstream
Tssr157670 transcription start site region 157670 1778 bp downstream
Tssr157671 transcription start site region 157671 1795 bp downstream
Tssr157672 transcription start site region 157672 1844 bp downstream
Tssr157673 transcription start site region 157673 1861 bp downstream
Tssr157674 transcription start site region 157674 1891 bp downstream
Tssr157675 transcription start site region 157675 1910 bp downstream
Tssr157676 transcription start site region 157676 1921 bp downstream
Tssr157677 transcription start site region 157677 1943 bp downstream
Tssr157678 transcription start site region 157678 1955 bp downstream
Tssr157679 transcription start site region 157679 1992 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