rs6406557 SNP Detail

Summary

• ID
  rs6406557
• 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
  Chr1:40125886 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATTCATGCC CTGTAGAATC
  CCCTCTCATT GAGTAAGGCT GGGGTGGATA AACAGAAGAA TACTTACAGA CATGCTACCT
  TATATAGTAC TACTAGTACT ATATAGTATT ATATAGTACT CTTAGTGTAC TACCTTAAGT
  AGTAAGGATG AAGGATTTTT GTGGGTCACT TCAGGCTCGG TTAGTTAAGC TAAAGGAAGA
  R
  CAGGTTGGTG GATCCCATGT AAGAGCCTTA CTCTTTGTGA GCTGGTCTGA AGGTCAGAGT
  CAAGAGATTT GAAGCAGTGT CACATAGGCT GTTGGCCTTA GAGAGAGGCT TCAGGCTTGA
  GACTCAGCAG TCTTTGACAT CTGGCCTTCA GCTGATAAAA TAGCAGGGAG TTCAGTACTG
  CAATCATAAC CATCATGTAA                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8812767	WI_WGS_1_40600318	WI	MOUSE	f	SNP	A	G
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6406557					SNP	A	G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40125886 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	662 bp distal
Gm16894	predicted gene, 16894	875 bp upstream
Gm37347	predicted gene, 37347	1785 bp upstream
Il1r2	interleukin 1 receptor, type II	within coordinates
Rr26842	regulatory region 26842	681 bp proximal
Rr29353	regulatory region 29353	285 bp distal
Rr396010	regulatory region 396010	690 bp downstream
Tssr6411	transcription start site region 6411	1977 bp downstream
Tssr6412	transcription start site region 6412	1956 bp downstream
Tssr6413	transcription start site region 6413	1942 bp downstream
Tssr6414	transcription start site region 6414	1498 bp downstream
Tssr6415	transcription start site region 6415	632 bp downstream
Tssr11414	transcription start site region 11414	864 bp upstream