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rs216154628 SNP Detail
Summary
  • ID
    rs216154628
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr6:4539310 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATGCGAGCAG CTTTTCTGAA
TTTTTAATCA AACCTTCCCA CTGATGCTAC CAAATGACAC TAGAATCCAG TACACTACAG
AGAAGAGAAT GAGGTCTGAC TCCATCTCAC AGTTTCAGAT TCTAATGAGG GAAACATTTG
CAGTGATGCA TAACTGAGTC AGATGCTCTT CTTGGATGGC CCTGCCCTCC CTAGGCAGAG
Y
TTATGGTCCT TTAACAAGTG TGCCAAGTTT CCTTTAAAAG CACCCTTCTC CTAAGCCCGG
GCTCTGACTC CATTCTGTCT CCTGTATGCA TGTATTTATT TGAGTTTTAG TATGAGGCGT
CTATTTAAGA GTTCACACCT TCTTCTCCAT AGTTTGAATA CAACGTAGAA GGGGTGTCCT
CCAAGGAAAT GGCAACTCAG                                            

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
ss367230143 MGP_WTSI_6_4489310 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 T C C C C C C C C C C C C C C C C C T C C C C C C C C 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
rs216154628 SNP 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 C C C C C C C C C C C C C T C C C C C C C C 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
ss367230143 MGP_WTSI_6_4489310 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr6:4539310 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Col1a2 collagen, type I, alpha 2 Intron
Tssr1769 transcription start site region 1769 1330 bp downstream
Tssr1770 transcription start site region 1770 642 bp downstream
Tssr54726 transcription start site region 54726 1512 bp downstream
Tssr54727 transcription start site region 54727 1431 bp downstream
Tssr54728 transcription start site region 54728 1354 bp downstream
Tssr54729 transcription start site region 54729 1300 bp downstream
Tssr54730 transcription start site region 54730 665 bp downstream
Tssr54731 transcription start site region 54731 620 bp downstream
Tssr54732 transcription start site region 54732 533 bp downstream
Tssr54733 transcription start site region 54733 157 bp upstream
Tssr54734 transcription start site region 54734 168 bp upstream
Tssr54735 transcription start site region 54735 182 bp upstream
Tssr54736 transcription start site region 54736 206 bp upstream
Tssr54737 transcription start site region 54737 228 bp upstream
Tssr54738 transcription start site region 54738 266 bp upstream
Tssr54739 transcription start site region 54739 281 bp upstream
Tssr54740 transcription start site region 54740 345 bp upstream
Tssr54741 transcription start site region 54741 696 bp upstream
Tssr54742 transcription start site region 54742 1218 bp upstream
Tssr54743 transcription start site region 54743 1233 bp upstream
Tssr54744 transcription start site region 54744 1264 bp upstream
Tssr54745 transcription start site region 54745 1276 bp upstream
Tssr54746 transcription start site region 54746 1289 bp upstream
Tssr54747 transcription start site region 54747 1320 bp upstream
Tssr54748 transcription start site region 54748 1364 bp upstream
Tssr54749 transcription start site region 54749 1533 bp upstream
Tssr54750 transcription start site region 54750 1546 bp upstream
Tssr54751 transcription start site region 54751 1554 bp upstream
Tssr54752 transcription start site region 54752 1597 bp upstream
Tssr54753 transcription start site region 54753 1619 bp upstream
Tssr54754 transcription start site region 54754 1728 bp upstream
Tssr59718 transcription start site region 59718 1411 bp downstream
Tssr59719 transcription start site region 59719 1479 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
03/18/2025
MGI 6.24 		The Jackson Laboratory