rs6293819 SNP Detail

Summary

• ID
  rs6293819
• Variation Type
  SNP
• Alleles
  A/C

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

Genome Location and Flanking Sequence

• Location
  Chr3:131196859 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                         AAGACCGCTT
  GGCGAGGTTA GTCACCACGG GCCTGGTGGC ACCTCTAGGT GAGCTGGAAG GGTGCTTGTT
  CCCGGTTAGT GAGACTAATG ATGCTACCCA CCTTGTCATT TGCTCCGTTA GGTGAATTGC
  GTCCTGGCAA GGATGAGAAA CCGGAACCAG AATGACTCTG AAAGAGTGAC TCTCCACTTA
  AATGAACCTG TGCGTTTCTG TTGCCTTGGG GCACAAGTGT CCATATGTGT GTGTGCCCCC
  M
  ANCCCCCANC CCCGGCCCCG GCTGATCTTA CCAATTAGGT TGCANGAANG GTTGCTTCTG
  TCTAAAAATG GCCAAGGNTC AGCATTTCTT TGGAGTCGTT TCCACACCTT GTAGCAGTTT
  TCAGTCAACC ACGGTCGTTT TGGAGGGTGT CACTAGGCAT CCAGGCAGCT GGCTAAACCT
  CCAATGAGTT TAATTGATAG AAATGCTTTT TATTGCATTG CCTACTTCCC TTCTGGTTTT
  AAGTTTGAAC                                                       
  
  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
ss8699714	WI_WGS_3_131972318	WI	MOUSE	f	SNP	C	A
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6293819					SNP	C	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131196859 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			160 bp distal
Gm36753	predicted gene, 36753			within coordinates
Rr585351	regulatory region 585351			694 bp distal
Rr585352	regulatory region 585352			within coordinates
Rr585353	regulatory region 585353			412 bp distal
Rr585354	regulatory region 585354			1451 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			1369 bp downstream
Tssr1056	transcription start site region 1056			1067 bp downstream
Tssr31735	transcription start site region 31735			1345 bp downstream
Tssr31736	transcription start site region 31736			693 bp downstream
Tssr31737	transcription start site region 31737			461 bp upstream
Tssr35709	transcription start site region 35709			1341 bp upstream
Tssr35710	transcription start site region 35710			1324 bp upstream
Tssr35711	transcription start site region 35711			1162 bp upstream
Tssr35712	transcription start site region 35712			1132 bp upstream
Tssr35713	transcription start site region 35713			863 bp upstream
Tssr35714	transcription start site region 35714			603 bp upstream
Tssr35715	transcription start site region 35715			567 bp upstream
Tssr35716	transcription start site region 35716			432 bp upstream
Tssr35717	transcription start site region 35717			356 bp upstream
Tssr35718	transcription start site region 35718			330 bp upstream
Tssr35719	transcription start site region 35719			87 bp upstream
Tssr35720	transcription start site region 35720			41 bp upstream
Tssr35721	transcription start site region 35721			177 bp downstream
Tssr35722	transcription start site region 35722			229 bp downstream
Tssr35723	transcription start site region 35723			288 bp downstream
Tssr35724	transcription start site region 35724			301 bp downstream
Tssr35725	transcription start site region 35725			339 bp downstream