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rs235554290 SNP Detail
Summary
  • ID
    rs235554290
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr19:5846941 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TAGGGTAGTC CCCACTGCTA
ATCAAAACCG ACCATGATAC CACTTTGGTC TCGATACAAT ACTGCTTGCT TGATTCTTGC
CACACAGGAA GGCTCCGCTG TCCTACATTA AGCCTTCAGT GCCTTTAGTG AGGGGTACCT
GAAAAATCTT AAAAAAAGGC TTAGCGCCCA CCTCACCCCT CCACCCCAAG GCCAACATTA
Y
ATCACATGCT AGCTGCTCCA GCATGAAGCT GGAGAGGATT CAACACTAGA TTACCAGTAG
CTAATCTTAA ACAAGAAAAG GCTCGTTCAC CTGTTGTCCT CATTTTGTCC ACTGGTGAAT
TTCAATTCAA CTGGAAGCTC CTTCTACAGT CTGAAGTACA TCTGAAAGAA CTAGGGCTTC
CCAATCCCCA CACTGAAAAT                                            

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
ss401662568 MGP_WTSI_19_5796913 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
rs235554290 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
ss401662568 MGP_WTSI_19_5796913 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:5846941 () 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 932 bp upstream
Tssr5415 transcription start site region 5415 47 bp upstream
Tssr5416 transcription start site region 5416 397 bp downstream
Tssr157645 transcription start site region 157645 532 bp upstream
Tssr157646 transcription start site region 157646 430 bp upstream
Tssr157647 transcription start site region 157647 343 bp upstream
Tssr157648 transcription start site region 157648 176 bp upstream
Tssr157649 transcription start site region 157649 84 bp upstream
Tssr157650 transcription start site region 157650 19 bp upstream
Tssr157651 transcription start site region 157651 11 bp downstream
Tssr157652 transcription start site region 157652 148 bp downstream
Tssr157653 transcription start site region 157653 265 bp downstream
Tssr157654 transcription start site region 157654 308 bp downstream
Tssr157655 transcription start site region 157655 345 bp downstream
Tssr157656 transcription start site region 157656 375 bp downstream
Tssr157657 transcription start site region 157657 497 bp downstream
Tssr157658 transcription start site region 157658 549 bp downstream
Tssr157659 transcription start site region 157659 652 bp downstream
Tssr157660 transcription start site region 157660 805 bp downstream
Tssr157661 transcription start site region 157661 826 bp downstream
Tssr157662 transcription start site region 157662 931 bp downstream
Tssr157663 transcription start site region 157663 990 bp downstream
Tssr157664 transcription start site region 157664 1112 bp downstream
Tssr157665 transcription start site region 157665 1119 bp downstream
Tssr157666 transcription start site region 157666 1144 bp downstream
Tssr157667 transcription start site region 157667 1397 bp downstream
Tssr157668 transcription start site region 157668 1444 bp downstream
Tssr157669 transcription start site region 157669 1459 bp downstream
Tssr157670 transcription start site region 157670 1479 bp downstream
Tssr157671 transcription start site region 157671 1496 bp downstream
Tssr157672 transcription start site region 157672 1545 bp downstream
Tssr157673 transcription start site region 157673 1562 bp downstream
Tssr157674 transcription start site region 157674 1592 bp downstream
Tssr157675 transcription start site region 157675 1611 bp downstream
Tssr157676 transcription start site region 157676 1622 bp downstream
Tssr157677 transcription start site region 157677 1644 bp downstream
Tssr157678 transcription start site region 157678 1656 bp downstream
Tssr157679 transcription start site region 157679 1693 bp downstream
Tssr157680 transcription start site region 157680 1748 bp downstream
Tssr157681 transcription start site region 157681 1777 bp downstream
Tssr157682 transcription start site region 157682 1795 bp downstream
Tssr157683 transcription start site region 157683 1821 bp downstream
Tssr157684 transcription start site region 157684 1837 bp downstream
Tssr157685 transcription start site region 157685 1847 bp downstream
Tssr157686 transcription start site region 157686 1862 bp downstream
Tssr157687 transcription start site region 157687 1931 bp downstream
Tssr157688 transcription start site region 157688 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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Send questions and comments to User Support. 		last database update
12/10/2024
MGI 6.24 		The Jackson Laboratory