rs6169040 SNP Detail

Summary

• ID
  rs6169040
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr6:7844359 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTTAAGTAT TTGCCATAGC
  AGAACAGAAG TAAAATGCCA TTACACACAT TCCTCCAAGA GGCTTTCTGT CCGTTGTCAC
  TATATGAGTT CTCTGTTCTT CTGAGGCACA CATCTGGTTA CAGAGCACTC TTCATTATGC
  CAAATCTCTT GTTATTAAGG ATAGAGGAAT GCTGTGAAAG GAAAAGAGGC AAAAAAAAAG
  R
  GGGGGGGGGC TAAGATTGGG TTAGAGGTCA GCGTGACGTT GAGGTTTGTT CCACAGACAA
  CAGTTTAAAA GGCAGTTCTT TACTTGTACT CCCTGCTAAT TTCGCTTTCT GCTTTCCTGA
  GAGAATTAGA ACACTCAACC TCACCAGAAG GGGGCTAAAA AAACCCTGAG CTCGGGGAAG
  CCGGGACTTC CCAGCCCACT                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8574577	WI_WGS_6_7594754	WI	MOUSE	f	SNP	G	A
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6169040					SNP	G	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:7844359 () rs orientation: forward

Symbol	Name	Function Class
C1galt1	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	865 bp upstream
Rr399558	regulatory region 399558	65 bp upstream
Rr626324	regulatory region 626324	within coordinates
Rr626325	regulatory region 626325	197 bp proximal
Rr626326	regulatory region 626326	494 bp proximal
Tssr54889	transcription start site region 54889	274 bp upstream
Tssr54890	transcription start site region 54890	407 bp upstream
Tssr54891	transcription start site region 54891	447 bp upstream
Tssr54892	transcription start site region 54892	892 bp upstream
Tssr54893	transcription start site region 54893	959 bp upstream