rs45840306 SNP Detail

Summary

• ID
  rs45840306
• 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
  Chr3:40586081 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCGCGGGCG ATCCCAGGGC
  ATACGGACCC ACGGTGACAC TCGGACATTT GTGTCCTCCA TCAGAACCTC AGCCGAGCTG
  GGGACCCGCT GACACCCACC GCCGACCCGA GGCTCGCCCT CGAGGCGGCT CCCTACAGGA
  ATGTTTCAGG GGGGCGGAAG GACCAGCATC CCCAAGCCTG CGCCCCGCAA CCTGGAGGAC
  Y
  TGGACTCGGT GCAGCGCGTC CTGCTACACA GGTCAGTGTG GCTCCGGGGA TGCAACCAGG
  CTGGGCGCAG CGGCGGGGTT CGGCTAGGTG CAGGGCTCCT ATCCCAGAGT GGGTTCTGGG
  GACTCGCAGA GACTCTAGAC CAGTGCCAAT GCTCTGGACT ATAAGAACCT AAGCTGTCTC
  TGTCACGCTG CTCTGCACTT                                            
  
  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
ss60393095	NES15896413	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	T	C	T	T	C	T	T	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
rs45840306					SNP	C	C	C	C	T	C	T	T	C	T	T	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
ss60393095	NES15896413	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40586081 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13107	CpG island 13107	within coordinates
Intu	inturned planar cell polarity protein	within coordinates
Rr77556	regulatory region 77556	within coordinates
Tssr28946	transcription start site region 28946	903 bp downstream
Tssr28947	transcription start site region 28947	776 bp downstream
Tssr28948	transcription start site region 28948	500 bp downstream
Tssr28949	transcription start site region 28949	462 bp downstream
Tssr28950	transcription start site region 28950	370 bp downstream
Tssr28951	transcription start site region 28951	333 bp downstream
Tssr28952	transcription start site region 28952	306 bp downstream
Tssr28953	transcription start site region 28953	279 bp downstream
Tssr28954	transcription start site region 28954	227 bp downstream