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rs36557540 SNP Detail
Summary
  • ID
    rs36557540
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr19:5848774 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                          GCCAG CTGCAAACAT TCAACAGCTC
Y
ACAGGTCTTT TTGGAAAAAG AGAAA                                      

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
129S1/SvImJ
A/J
AKR/J
BALB/cByJ
BTBR T<+> Itpr3/J
C3H/HeJ
DBA/2J
FVB/NJ
KK/HlJ
MOLF/EiJ
NOD/ShiLtJ
WSB/EiJ
ss50577490 NES13649164 PERLEGEN MM_PANEL2 f SNP T T T T T T T T T C T T
SNP Consensus Information
SNP Consensus Type
129S1/SvImJ
A/J
AKR/J
BALB/cByJ
BTBR T<+> Itpr3/J
C3H/HeJ
DBA/2J
FVB/NJ
KK/HlJ
MOLF/EiJ
NOD/ShiLtJ
WSB/EiJ
rs36557540 SNP T T T T T T T T T C 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
ss50577490 NES13649164 PERLEGEN MM_PANEL f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:5848774 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Gm55521 predicted gene, 55521 254 bp downstream
Malat1 metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA) within coordinates
Rr543161 regulatory region 543161 381 bp distal
Rr543162 regulatory region 543162 within coordinates
Rr543163 regulatory region 543163 672 bp proximal
Tssr5415 transcription start site region 5415 1880 bp upstream
Tssr5416 transcription start site region 5416 1431 bp upstream
Tssr5417 transcription start site region 5417 280 bp downstream
Tssr5418 transcription start site region 5418 763 bp downstream
Tssr5419 transcription start site region 5419 1417 bp downstream
Tssr5420 transcription start site region 5420 1434 bp downstream
Tssr157649 transcription start site region 157649 1917 bp upstream
Tssr157650 transcription start site region 157650 1852 bp upstream
Tssr157651 transcription start site region 157651 1782 bp upstream
Tssr157652 transcription start site region 157652 1642 bp upstream
Tssr157653 transcription start site region 157653 1558 bp upstream
Tssr157654 transcription start site region 157654 1504 bp upstream
Tssr157655 transcription start site region 157655 1478 bp upstream
Tssr157656 transcription start site region 157656 1445 bp upstream
Tssr157657 transcription start site region 157657 1325 bp upstream
Tssr157658 transcription start site region 157658 1219 bp upstream
Tssr157659 transcription start site region 157659 1115 bp upstream
Tssr157660 transcription start site region 157660 1019 bp upstream
Tssr157661 transcription start site region 157661 986 bp upstream
Tssr157662 transcription start site region 157662 893 bp upstream
Tssr157663 transcription start site region 157663 832 bp upstream
Tssr157664 transcription start site region 157664 718 bp upstream
Tssr157665 transcription start site region 157665 709 bp upstream
Tssr157666 transcription start site region 157666 677 bp upstream
Tssr157667 transcription start site region 157667 423 bp upstream
Tssr157668 transcription start site region 157668 382 bp upstream
Tssr157669 transcription start site region 157669 363 bp upstream
Tssr157670 transcription start site region 157670 347 bp upstream
Tssr157671 transcription start site region 157671 326 bp upstream
Tssr157672 transcription start site region 157672 276 bp upstream
Tssr157673 transcription start site region 157673 242 bp upstream
Tssr157674 transcription start site region 157674 230 bp upstream
Tssr157675 transcription start site region 157675 217 bp upstream
Tssr157676 transcription start site region 157676 202 bp upstream
Tssr157677 transcription start site region 157677 180 bp upstream
Tssr157678 transcription start site region 157678 166 bp upstream
Tssr157679 transcription start site region 157679 98 bp upstream
Tssr157680 transcription start site region 157680 71 bp upstream
Tssr157681 transcription start site region 157681 50 bp upstream
Tssr157682 transcription start site region 157682 37 bp upstream
Tssr157683 transcription start site region 157683 1 bp upstream
Tssr157684 transcription start site region 157684 4 bp downstream
Tssr157685 transcription start site region 157685 14 bp downstream
Tssr157686 transcription start site region 157686 29 bp downstream
Tssr157687 transcription start site region 157687 98 bp downstream
Tssr157688 transcription start site region 157688 148 bp downstream
Tssr157689 transcription start site region 157689 179 bp downstream
Tssr157690 transcription start site region 157690 257 bp downstream
Tssr157691 transcription start site region 157691 303 bp downstream
Tssr157692 transcription start site region 157692 357 bp downstream
Tssr157693 transcription start site region 157693 414 bp downstream
Tssr157694 transcription start site region 157694 472 bp downstream
Tssr157695 transcription start site region 157695 536 bp downstream
Tssr157696 transcription start site region 157696 557 bp downstream
Tssr157697 transcription start site region 157697 606 bp downstream
Tssr157698 transcription start site region 157698 622 bp downstream
Tssr157699 transcription start site region 157699 680 bp downstream
Tssr157700 transcription start site region 157700 729 bp downstream
Tssr157701 transcription start site region 157701 747 bp downstream
Tssr157702 transcription start site region 157702 783 bp downstream
Tssr157703 transcription start site region 157703 834 bp downstream
Tssr157704 transcription start site region 157704 860 bp downstream
Tssr157705 transcription start site region 157705 881 bp downstream
Tssr157706 transcription start site region 157706 929 bp downstream
Tssr157707 transcription start site region 157707 975 bp downstream
Tssr157708 transcription start site region 157708 985 bp downstream
Tssr157709 transcription start site region 157709 997 bp downstream
Tssr157710 transcription start site region 157710 1016 bp downstream
Tssr157711 transcription start site region 157711 1035 bp downstream
Tssr157712 transcription start site region 157712 1072 bp downstream
Tssr157713 transcription start site region 157713 1099 bp downstream
Tssr157714 transcription start site region 157714 1150 bp downstream
Tssr157715 transcription start site region 157715 1167 bp downstream
Tssr157716 transcription start site region 157716 1211 bp downstream
Tssr157717 transcription start site region 157717 1238 bp downstream
Tssr157718 transcription start site region 157718 1283 bp downstream
Tssr157719 transcription start site region 157719 1337 bp downstream
Tssr157720 transcription start site region 157720 1356 bp downstream
Tssr157721 transcription start site region 157721 1392 bp downstream
Tssr157722 transcription start site region 157722 1409 bp downstream
Tssr157723 transcription start site region 157723 1484 bp downstream
Tssr157724 transcription start site region 157724 1493 bp downstream
Tssr157725 transcription start site region 157725 1539 bp downstream
Tssr157726 transcription start site region 157726 1544 bp downstream
Tssr157727 transcription start site region 157727 1559 bp downstream
Tssr157728 transcription start site region 157728 1656 bp downstream
Tssr157729 transcription start site region 157729 1855 bp downstream
Tssr157730 transcription start site region 157730 1985 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