rs52200907 SNP Detail

Summary

• ID
  rs52200907
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:126422518 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGCGCAGTT TATTAGAGCC
  CCATGGTGCT TATCACAGTG CCAGGTAACT CTGTGAATAT CAAAGGCTCC AAGTCGTGAT
  TCTCAAGTTA GTATCCAAAA TGGCAAACAT AGTTTCAAAG CAAGGTGGGT TTCCACTTAC
  AGTAGATACT GTAAGTGATG GGCAAGACTG GTGCCCTATT AAGAAAGTTT TCCTAATATT
  W
  GCTACTTTTG AATCTTTGTG CATGTGTTTG TGTGTATATG ATATACATGT GCATATATGT
  GTGAGAGTGC ATCTGCTGTG GAGTGTGTAT AGGTCAGAGG ACAAACTCAG GTATCAATTC
  TTGCCTTCCA TCTGGTCTGA GACAGGGTCT TTGTTATTCA TTAATATGCA CACCAGGCTA
  GCTGGCCTTC GTGTTTTCAG                                            
  
  W = A/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	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ
ss60794522	NES16466543	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	T	A	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ
rs52200907					SNP	A	A	A	A	T	A	A	A	A	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
ss60794522	NES16466543	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:126422518 () rs orientation: forward

Symbol	Name	Function Class
Cpgi687	CpG island 687	1950 bp distal
Nckap5	NCK-associated protein 5	within coordinates
Rr417491	regulatory region 417491	1546 bp distal
Tssr13402	transcription start site region 13402	1977 bp upstream
Tssr13403	transcription start site region 13403	1933 bp upstream
Tssr13404	transcription start site region 13404	1907 bp upstream
Tssr13405	transcription start site region 13405	1830 bp upstream