rs49454860 SNP Detail

Summary

• ID
  rs49454860
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:40594873 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAACATAAT AGAAAAAAGA
  AAACAAGACA GTGTGCAAAC TGTCAATATG AAAAGAAAAA AAGGAAAAGG GAAAAACGAG
  TCTCAGCCTG GCTCGTCGCG TGGAAGAGCG TGGGGAAATG CCAAACAGCA AAGAAGTTTG
  CACAGCCCCC CCCCCCCCAA AAATGCTCAG CGTCTGTACC GGGAAGCTTC CCCGTCTCCC
  R
  GGCAACCGGC GCCTCAGCCA ATCGCAACTG AGTATCGGGG TCACGTGGCC CGACCTGGCA
  AAATGGCGGC GCTGCTGGAG GCGCGGCTGG CGGGCTCTGG CGTCTGAGCT TCTGCCCCGG
  AGCTCTCGCG ACCCAGAGGA TGGCGGGCCT TGCGAGGGGA GACTCGCGTG GGCGCCCGCC
  CGAGCTCCCT GGAGACCTGT                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60393035	NES15896192	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	G	A	A	A	A	A	A	G	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49454860					SNP	A	A	A	A	A	A	G	A	A	A	A	A	A	G	A

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
ss60393035	NES15896192	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40594873 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13108	CpG island 13108	within coordinates
Intu	inturned planar cell polarity protein	Intron
Rr397649	regulatory region 397649	within coordinates
Rr575837	regulatory region 575837	within coordinates
Rr575838	regulatory region 575838	579 bp proximal
Tssr28955	transcription start site region 28955	27 bp upstream