rs6173542 SNP Detail

Summary

• ID
  rs6173542
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr6:12751041 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                         AAATAGGCAG
  TGATCAAAAG ATTATAGGTT GATAGGGATA CAAAGGCAGG CTGGTCCTAA CTAATGTATA
  CCCCNCTGAA GGAGCAAGTC CTTCAATATT CACACTGCCA AAGAAGAAAA AGACCTGCCA
  TTGCCTCCTN GGTTCTGTCC TTCAGAAATG GCTCCTCCAT GCAATACCAC TCTGCNTGGA
  AGCCTCTTCC TTTCCCTTCT ATTTGTATTT CTCAGTTGTC GTTAGTGCTC ATCCCTGAAG
  K
  TCTTCAACCG TGAATGGAAT TGTAGATTCT GCGTTATTAA TGCCCATTCA TAGTGTTCTC
  CATAAGCCCC AAGTCAATTN ACCAGGTGGA GGCTCCGTGT ATAACAGAAT ACNGAGGGTG
  GAAGAAGGTA AATTCGTTAA TTTGCAAGTT GACCACCTAC CTCCCAAAAG CCATCAGATG
  TCACACTCCA TATCTTAGTG TAAGtaataa taataataat aataataata ataataataa
  taataataat                                                       
  
  K = G/T
  

  
  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
ss8579089	WI_WGS_6_12537730	WI	MOUSE	f	SNP	G	T
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6173542					SNP	G	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:12751041 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17163	CpG island 17163	1491 bp distal
Rr626539	regulatory region 626539	1800 bp distal
Rr626540	regulatory region 626540	1142 bp distal
Rr626541	regulatory region 626541	within coordinates
Rr626542	regulatory region 626542	1437 bp proximal
Thsd7a	thrombospondin, type I, domain containing 7A	1789 bp upstream
Tssr1780	transcription start site region 1780	1852 bp upstream
Tssr59828	transcription start site region 59828	1963 bp upstream
Tssr59829	transcription start site region 59829	1947 bp upstream
Tssr59830	transcription start site region 59830	1875 bp upstream
Tssr59831	transcription start site region 59831	1833 bp upstream
Tssr59832	transcription start site region 59832	1602 bp upstream