rs47572889 SNP Detail

Summary

• ID
  rs47572889
• 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
  Chr1:40124755 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTTTCCCTT CTGAGCCCTA
  GCTTATATGT CTCTGACCTC AGCCTCCTTA CACAGGGTGA TCTTGGCCAG AGCTTCTCTC
  TGGGTTTCCT ACTGTGTAAA TAGAGGCAAA AGACTGGCCT GTCCTTCCCA GTCCCTGCTT
  GCAGTGGGAT GTTGCTGGCT TCCGTCCGTG TTCCATATCG GCTTCCATCA ACCTCACCCT
  Y
  CTCTAGCTCT GCCTTACCTG GAGGCTTGCT CTCCGGGATC AGCATCTTGT TCCTACAGGC
  ATAAGTGCAG AAGAATGTCT TCCCCGAGGC CTCTCTGAGC CTCGCCTGCC TCAATGCATT
  CTTTTCCTTT TCTTAGCTGG TAGTGCTGCG GGGATGGACC CTCCCTCGTG TGCTGCAGGT
  TGTCCTGGGC TTCCCCAAGC                                            
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60723889	NES16366439	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	T	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs47572889					SNP	C	C	C	C	C	C	C	C	C	T	C	C	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
ss60723889	NES16366439	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40124755 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	166 bp proximal
Gm16894	predicted gene, 16894	within coordinates
Il1r2	interleukin 1 receptor, type II	within coordinates
Rr26842	regulatory region 26842	1812 bp proximal
Rr29353	regulatory region 29353	within coordinates
Rr396010	regulatory region 396010	141 bp upstream
Tssr62	transcription start site region 62	878 bp downstream
Tssr6411	transcription start site region 6411	846 bp downstream
Tssr6412	transcription start site region 6412	825 bp downstream
Tssr6413	transcription start site region 6413	811 bp downstream
Tssr6414	transcription start site region 6414	367 bp downstream
Tssr6415	transcription start site region 6415	496 bp upstream
Tssr11414	transcription start site region 11414	228 bp downstream