rs6293840 SNP Detail

Summary

• ID
  rs6293840
• Variation Type
  SNP
• Alleles
  A/C

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

Genome Location and Flanking Sequence

• Location
  Chr3:131196861 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGGAAGGG TGCTTGTTCC
  CGGTTAGTGA GACTAATGAT GCTACCCACC TTGTCATTTG CTCCGTTAGG TGAATTGCGT
  CCTGGCAAGG ATGAGAAACC GGAACCAGAA TGACTCTGAA AGAGTGACTC TCCACTTAAA
  TGAACCTGTG CGTTTCTGTT GCCTTGGGGC ACAAGTGTCC ATATGTGTGT GTGCCCCCCA
  M
  CCCCCATCCC CGGCCCCGGC TGATCTTACC AATTAGGTTG CAGGAAGGGT TGCTTCTGTC
  TAAAAATGGC CAAGGATCAG CATTTCTTTG GAGTCGTTTC CACACCTTGT AGCAGTTTTC
  AGTCAACCAC GGTCGTTTTG GAGGGTGTCA CTAGGCATCC AGGCAGCTGG CTAAACCTCC
  AATGAGTTTA ATTGATAGAA                                            
  
  M = A/C
  

  
  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
ss8699735	WI_WGS_3_131972320	WI	MOUSE	f	SNP	A	C
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6293840					SNP	A	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131196861 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			162 bp distal
Gm36753	predicted gene, 36753			within coordinates
Rr585351	regulatory region 585351			696 bp distal
Rr585352	regulatory region 585352			within coordinates
Rr585353	regulatory region 585353			414 bp distal
Rr585354	regulatory region 585354			1449 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			1371 bp downstream
Tssr1056	transcription start site region 1056			1069 bp downstream
Tssr31735	transcription start site region 31735			1347 bp downstream
Tssr31736	transcription start site region 31736			695 bp downstream
Tssr31737	transcription start site region 31737			459 bp upstream
Tssr35709	transcription start site region 35709			1343 bp upstream
Tssr35710	transcription start site region 35710			1326 bp upstream
Tssr35711	transcription start site region 35711			1164 bp upstream
Tssr35712	transcription start site region 35712			1134 bp upstream
Tssr35713	transcription start site region 35713			865 bp upstream
Tssr35714	transcription start site region 35714			605 bp upstream
Tssr35715	transcription start site region 35715			569 bp upstream
Tssr35716	transcription start site region 35716			434 bp upstream
Tssr35717	transcription start site region 35717			358 bp upstream
Tssr35718	transcription start site region 35718			332 bp upstream
Tssr35719	transcription start site region 35719			89 bp upstream
Tssr35720	transcription start site region 35720			43 bp upstream
Tssr35721	transcription start site region 35721			175 bp downstream
Tssr35722	transcription start site region 35722			227 bp downstream
Tssr35723	transcription start site region 35723			286 bp downstream
Tssr35724	transcription start site region 35724			299 bp downstream
Tssr35725	transcription start site region 35725			337 bp downstream