rs46821553 SNP Detail

Summary

• ID
  rs46821553
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr3:40585497 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACTTTTCAC ACCGTACCCA
  TGTAATGTAC ATGATTACTT GTTTTGATTT TTGCTTGTTT GTTTTGGGAC AGTGCCTTGT
  TATGTAGCCC TGACTGGCCT GGCACTCCCT ACATAAAGCA GGCCGGCCTC CAACTGTTAA
  CTATCCTCTG CCTCAGCCTC TGAGTCAGGG GAAAGAAAGG AGAGCGCCAC CAGAACGGCA
  Y
  GCAAATGGTT AAAGTGCTTA AATTCCCACC CACAGGGGCA TCTGGCTTCT CTTCTCAACT
  CAGTCCGCAA CACAGCCCCA GGGCAGGCGC ATCTGTCCCG CAAGCACCTC CTCCTCTTCA
  GGCTCCTTGG TGGCCTCAGG TGACAGTGTC CTTCCCTGGG GCGGCGCCTG GACACCGGTG
  TCCAAAGCTG GGGCCGCCTA                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60393098	NES15896405	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	T	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46821553					SNP	C	C	C	C	T	C	C	C	C	C	C	C

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
ss60393098	NES15896405	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40585497 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13107	CpG island 13107	within coordinates
Intu	inturned planar cell polarity protein	62 bp upstream
Rr67318	regulatory region 67318	1497 bp distal
Rr77556	regulatory region 77556	within coordinates
Tssr28946	transcription start site region 28946	319 bp downstream
Tssr28947	transcription start site region 28947	192 bp downstream
Tssr28948	transcription start site region 28948	43 bp upstream
Tssr28949	transcription start site region 28949	117 bp upstream
Tssr28950	transcription start site region 28950	200 bp upstream
Tssr28951	transcription start site region 28951	230 bp upstream
Tssr28952	transcription start site region 28952	260 bp upstream
Tssr28953	transcription start site region 28953	292 bp upstream
Tssr28954	transcription start site region 28954	334 bp upstream