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rs233990587 SNP Detail
Summary
  • ID
    rs233990587
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr19:5847828 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TAATCATACT CCAGTCGCGT
CACAATGCAT TCTAATAGCA GCAGATTGGA ACAGTACTGC ACATATTACT TGCCAAAGAA
CAGACATGAC CTGAAGTCAA GACACCTGCA TTCTGTGTGG TCTGTAAAAA AAAAGCTAGA
ACAAGTAAGC CCCATCCCCC CCTCCCTCCA CATTCCAGGA AAAACAAACT CACTGCAAGG
Y
CTCACATCAC ACACTCACTA GCAGAACAGA AGACAGAGGC AAGCGCTTAT ATGCAAAGTC
CTGAGCAGCT CCATGAAGGA TGAAATGAGG CTCTGCAAAG GAAAACTCTT TAAACCCACA
TGCCTGACCC CACTCGTGGC TCAAGTGAGG TGACAAAAGG CTAAAGTGGA TGAGATGATC
GTAAGCATTT AAACTCAACA                                            

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
ss401662571 MGP_WTSI_19_5797800 EVA_MGPV3 EVA_MGPV3 f SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T
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
rs233990587 SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T
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
ss401662571 MGP_WTSI_19_5797800 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:5847828 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Gm55521 predicted gene, 55521 1200 bp downstream
Malat1 metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA) within coordinates
Mascrna Malat1-associated small cytoplasmic RNA 1819 bp upstream
Rr543161 regulatory region 543161 within coordinates
Rr543162 regulatory region 543162 760 bp proximal
Rr543163 regulatory region 543163 1618 bp proximal
Tssr5415 transcription start site region 5415 934 bp upstream
Tssr5416 transcription start site region 5416 485 bp upstream
Tssr5417 transcription start site region 5417 1226 bp downstream
Tssr5418 transcription start site region 5418 1709 bp downstream
Tssr157645 transcription start site region 157645 1419 bp upstream
Tssr157646 transcription start site region 157646 1317 bp upstream
Tssr157647 transcription start site region 157647 1230 bp upstream
Tssr157648 transcription start site region 157648 1063 bp upstream
Tssr157649 transcription start site region 157649 971 bp upstream
Tssr157650 transcription start site region 157650 906 bp upstream
Tssr157651 transcription start site region 157651 836 bp upstream
Tssr157652 transcription start site region 157652 696 bp upstream
Tssr157653 transcription start site region 157653 612 bp upstream
Tssr157654 transcription start site region 157654 558 bp upstream
Tssr157655 transcription start site region 157655 532 bp upstream
Tssr157656 transcription start site region 157656 499 bp upstream
Tssr157657 transcription start site region 157657 379 bp upstream
Tssr157658 transcription start site region 157658 273 bp upstream
Tssr157659 transcription start site region 157659 169 bp upstream
Tssr157660 transcription start site region 157660 73 bp upstream
Tssr157661 transcription start site region 157661 40 bp upstream
Tssr157662 transcription start site region 157662 44 bp downstream
Tssr157663 transcription start site region 157663 103 bp downstream
Tssr157664 transcription start site region 157664 225 bp downstream
Tssr157665 transcription start site region 157665 232 bp downstream
Tssr157666 transcription start site region 157666 257 bp downstream
Tssr157667 transcription start site region 157667 510 bp downstream
Tssr157668 transcription start site region 157668 557 bp downstream
Tssr157669 transcription start site region 157669 572 bp downstream
Tssr157670 transcription start site region 157670 592 bp downstream
Tssr157671 transcription start site region 157671 609 bp downstream
Tssr157672 transcription start site region 157672 658 bp downstream
Tssr157673 transcription start site region 157673 675 bp downstream
Tssr157674 transcription start site region 157674 705 bp downstream
Tssr157675 transcription start site region 157675 724 bp downstream
Tssr157676 transcription start site region 157676 735 bp downstream
Tssr157677 transcription start site region 157677 757 bp downstream
Tssr157678 transcription start site region 157678 769 bp downstream
Tssr157679 transcription start site region 157679 806 bp downstream
Tssr157680 transcription start site region 157680 861 bp downstream
Tssr157681 transcription start site region 157681 890 bp downstream
Tssr157682 transcription start site region 157682 908 bp downstream
Tssr157683 transcription start site region 157683 934 bp downstream
Tssr157684 transcription start site region 157684 950 bp downstream
Tssr157685 transcription start site region 157685 960 bp downstream
Tssr157686 transcription start site region 157686 975 bp downstream
Tssr157687 transcription start site region 157687 1044 bp downstream
Tssr157688 transcription start site region 157688 1094 bp downstream
Tssr157689 transcription start site region 157689 1125 bp downstream
Tssr157690 transcription start site region 157690 1203 bp downstream
Tssr157691 transcription start site region 157691 1249 bp downstream
Tssr157692 transcription start site region 157692 1303 bp downstream
Tssr157693 transcription start site region 157693 1360 bp downstream
Tssr157694 transcription start site region 157694 1418 bp downstream
Tssr157695 transcription start site region 157695 1482 bp downstream
Tssr157696 transcription start site region 157696 1503 bp downstream
Tssr157697 transcription start site region 157697 1552 bp downstream
Tssr157698 transcription start site region 157698 1568 bp downstream
Tssr157699 transcription start site region 157699 1626 bp downstream
Tssr157700 transcription start site region 157700 1675 bp downstream
Tssr157701 transcription start site region 157701 1693 bp downstream
Tssr157702 transcription start site region 157702 1729 bp downstream
Tssr157703 transcription start site region 157703 1780 bp downstream
Tssr157704 transcription start site region 157704 1806 bp downstream
Tssr157705 transcription start site region 157705 1827 bp downstream
Tssr157706 transcription start site region 157706 1875 bp downstream
Tssr157707 transcription start site region 157707 1921 bp downstream
Tssr157708 transcription start site region 157708 1931 bp downstream
Tssr157709 transcription start site region 157709 1943 bp downstream
Tssr157710 transcription start site region 157710 1962 bp downstream
Tssr157711 transcription start site region 157711 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
12/17/2024
MGI 6.24 		The Jackson Laboratory