rs46888002 SNP Detail

Summary

• ID
  rs46888002
• Variation Type
  SNP
• Alleles
  A/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
  Chr1:40505412 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTTCTTCTT TTTTTTTTTT
  CCTGCGATAA TTCTCTGGTT TGCCAAATCT CTCTAATCAA GCTCCTGGCC TTGCCTCACT
  GTGCCTTCCC TCCCTGTCTG TTGTCACAGT TGTGGACCAG GAGGTATTTA GTCTCACTTG
  CTGGGCGAAT CCTGCTTCAC AGATGTAAGT GAAGGAGAAG CCACTGCCCA GGCCTGTGTG
  W
  GGGCCACCTC TCTGAAGGTA AGGGCAGACT CTGATGTCCA GTCCTCACTG TCTTCTGCTG
  TCTGGAGCAA GGAGAGGAAC CACCCACAAC GATCCTGAAA ACAAGGTCAA TTGTGAGTGG
  TGTGTATGTG TGTGTGTGTG TGTGTGTGTG TGTGTGTGTG TGTGTATAAC TAGTGAGTAC
  AAATGTATAT GTTCTTTGTA                                            
  
  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	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60721674	NES16361078	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46888002					SNP	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T

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
ss60721674	NES16361078	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40505412 () rs orientation: forward

Symbol	Name	Function Class
Il1rl1	interleukin 1 receptor-like 1	837 bp downstream
Il18r1	interleukin 18 receptor 1	within coordinates
Rr16188	regulatory region 16188	412 bp distal
Rr29358	regulatory region 29358	11 bp distal
Rr33590	regulatory region 33590	789 bp proximal
Rr33591	regulatory region 33591	1789 bp proximal
Rr371160	regulatory region 371160	within coordinates
Tssr6465	transcription start site region 6465	554 bp downstream
Tssr6466	transcription start site region 6466	523 bp downstream
Tssr6467	transcription start site region 6467	277 bp downstream
Tssr6468	transcription start site region 6468	246 bp downstream
Tssr6469	transcription start site region 6469	174 bp downstream
Tssr6470	transcription start site region 6470	141 bp downstream
Tssr6471	transcription start site region 6471	42 bp downstream
Tssr6472	transcription start site region 6472	42 bp upstream