rs6169039 SNP Detail

Summary

• ID
  rs6169039
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  132
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr6:7844358 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                                   
  GTATAGCCCT GGCTGTCCCG GAACTCACTT ATTAGACCAG GCTGGCCTCC AACTCCCGAG
  TGCTAGGCGT GCACCACCAC TCCCCGCTGA GTTTGTAAAA CTCTTAAGTA TTTGCCATAG
  CAGAACAGAA GTAAAATGCC ATTACACACA TTCCTCCAAG AGGCTTTCTG TCCGTTGTCA
  CTATATGAGT TCTCTGTTCT TCTGAGGCAC ACATCTGGTT ACAGAGCACT CTTCATTATG
  CCAAATCTCT TGTTATTAAG GATAGAGGAA TGCTGTGAAA GGAAAAGAGG CAAAAAAAAA
  R
  GGGGGGGGGG CTAAGATTGG GTTAGAGGTC AGCGTGACGT TGAGGTTTGT TCCACAGACA
  ACAGTTTAAA AGGCAGTTCT TTACTTGTAC TCCCTGCTAA TTTCGCTTTC TGCTTTCCTG
  AGAGAATTAG AACACTCAAC CTCACCAGAA GGGGGCTAAA AAAACCCTGA GCTCGGGGAA
  GCCGGGACTT CCCAGCCCAC TCCGCAGGAG GGCGGGGCAA ACACCCGGCG GCCAATCCCC
  GCATCCGCAG GTCGCGGTGT CCCCGCCCAC TCTGCCCAGG CCCCGCCCTT CCCCGGGGCT
                                                                   
  
  R = A/G
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129X1/SvJ	A/J	C57BL/6J	CZECHII/EiJ
ss8574576	WI_WGS_6_7594753	WI	MOUSE	f	SNP			G	A
ss45958839	mCV24778266	ABI	CRAMUS_MOUSE	f	SNP	A	G	G
ss132955879	ENSMUSSNP1375141	ENSEMBL	ENSEMBL_Sanger	f	SNP	A	G
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C57BL/6J	CZECHII/EiJ
rs6169039					SNP	A	G	G	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:7844358 () rs orientation: forward

Symbol	Name	Function Class
C1galt1	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	866 bp upstream
Cpgi17149	CpG island 17149	118 bp proximal
Rr399558	regulatory region 399558	66 bp upstream
Rr626324	regulatory region 626324	within coordinates
Rr626325	regulatory region 626325	198 bp proximal
Rr626326	regulatory region 626326	495 bp proximal
Tssr54889	transcription start site region 54889	275 bp upstream
Tssr54890	transcription start site region 54890	408 bp upstream
Tssr54891	transcription start site region 54891	448 bp upstream
Tssr54892	transcription start site region 54892	893 bp upstream
Tssr54893	transcription start site region 54893	960 bp upstream