rs6406160 SNP Detail

Summary

• ID
  rs6406160
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:40125864 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGACTGTAGA ATGAGACCCA
  CTGATTCATG CCCTGTAGAA TCCCCTCTCA TTGAGTAAGG CTGGGGTGGA TAAACAGAAG
  AATACTTACA GACATGCTAC CTTATATAGT ACTACTAGTA CTATATAGTA TTATATAGTA
  CTCTTAGTGT ACTACCTTAA GTAGTAAGGA TGAAGGATTT TTGTGGGTCA CTTCAGGCTC
  R
  GTTAGTTAAG CTAAAGGAAG AACAGGTTGG TGGATCCCAT GTAAGAGCCT TACTCTTTGT
  GAGCTGGTCT GAAGGTCAGA GTCAAGAGAT TTGAAGCAGT GTCACATAGG CTGTTGGCCT
  TAGAGAGAGG CTTCAGGCTT GAGACTCAGC AGTCTTTGAC ATCTGGCCTT CAGCTGATAA
  AATAGCAGGG AGTTCAGTAC                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8812368	WI_WGS_1_40600296	WI	MOUSE	f	SNP							G		A
ss60723880	NES16366385	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G		A		G	G	G	A	G	G	A	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6406160					SNP	G	G	G	G	G	G	G	A	A	G	G	G	A	G	G	A	G

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
ss60723880	NES16366385	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40125864 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	640 bp distal
Gm16894	predicted gene, 16894	853 bp upstream
Gm37347	predicted gene, 37347	1807 bp upstream
Il1r2	interleukin 1 receptor, type II	within coordinates
Rr26842	regulatory region 26842	703 bp proximal
Rr29353	regulatory region 29353	263 bp distal
Rr396010	regulatory region 396010	668 bp downstream
Tssr62	transcription start site region 62	1987 bp downstream
Tssr6411	transcription start site region 6411	1955 bp downstream
Tssr6412	transcription start site region 6412	1934 bp downstream
Tssr6413	transcription start site region 6413	1920 bp downstream
Tssr6414	transcription start site region 6414	1476 bp downstream
Tssr6415	transcription start site region 6415	610 bp downstream
Tssr11414	transcription start site region 11414	842 bp upstream