rs46910944 SNP Detail

Summary

• ID
  rs46910944
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:52202842 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGTCAAGCG TGGGACAGTC
  ACCCCTTCTG GCCGAGAGCG GTTCAGGTTT AATGCCATAA GGCCGGCTGG AGGGTAAGCC
  CGCGAAGGAG AGCGCACCGG GCGTGGGTTC CAGCCAGGAG CGCATATACC TGCCGTCCGG
  CGCCGCCGCC GCCACGGGCG CCTGGGGATG CACGTAGGGG TGGTGGTGGT GATGATACAC
  Y
  GCAGCAGGCA CCGCATTGGC GCCCGCCGCG TGCACTGGGT TCCACGAGGC ACCAAACACC
  GCCGCCTTGG ACTGGAAGCT GCAAGGACTG AAGTCGGGGT GTTCGGCCAG AGCTGCCGCC
  TGCCTTGGGG GTTGACCCAG GGTCCCTGGA GCGTAGCGTC CCGCACCCAG CTCATCAGCA
  GCGTCGGCGC CCAGCAGGAA                                            
  
  Y = C/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	CAST/EiJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60886888	NES15970092	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	T
SNP Consensus Information
SNP					Consensus Type	CAST/EiJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46910944					SNP	C	T	C	T

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss60886888	NES15970092	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52202842 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17430	CpG island 17430			1355 bp distal
Cpgi17431	CpG island 17431			within coordinates
Gm57855	predicted gene, 57855			Intron
				Noncoding-Transcript-Variant
Gm68361	predicted gene, 68361			1329 bp upstream
Hoxa9	homeobox A9			Coding-NonSynonymous
				Coding-Synonymous
				Intron
				Noncoding-Transcript-Variant
Rr630377	regulatory region 630377			317 bp proximal
Rr630378	regulatory region 630378			839 bp proximal
Rr630379	regulatory region 630379			1340 bp proximal
Rr630380	regulatory region 630380			1498 bp proximal
Tssr61006	transcription start site region 61006			1251 bp upstream
Tssr61007	transcription start site region 61007			631 bp upstream
Tssr61008	transcription start site region 61008			606 bp upstream
Tssr61009	transcription start site region 61009			within coordinates
Tssr61010	transcription start site region 61010			83 bp downstream
Tssr61011	transcription start site region 61011			283 bp downstream
Tssr61012	transcription start site region 61012			303 bp downstream