rs28227539 SNP Detail

Summary

• ID
  rs28227539
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr11:80073386 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGTCTGCCTC CTGAGTGCTG
  GGATTACAGA TGTGTGCCTT CATGCCTGAT GAGGTCCTCT GAATTTACTG ATTTTTTTTT
  AATTCCCCGG TCAGAGAAGC TGCAATACAA ATTCTGGATG TGTCTCTCCA GAGTGCAGCT
  CCCTGGGGAG GTGGATCCTC TCTAGCTTCT AAAGTTCTTT GGACCTGACT GCTGAGGTAC
  Y
  TGCTAGAGCA GTGATTCTCA ATGAGTGGGT CATAACACCT TTGGCAAACT CCTATATTCA
  CATGACTATT CATAACAGTT GCAAAATTAC AGTTGTGAAG TAGCAAGAAA ATTATTTTTT
  AAAGATTTGT TCATTTATTT TATGTATATG AGTACACTGT AGCTGTCTTC AGACATACCA
  GATCCCATTA CAGATGGTTG                                            
  
  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	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	PWD/PhJ
ss37150062	NES08460032	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	PWD/PhJ
rs28227539					SNP	C	C	C	C	C	C	C	C	C	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
ss37150062	NES08460032	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:80073386 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3379	CpG island 3379	1201 bp proximal
D11Bhm113	DNA segment, Chr 11, Boehm 113	1487 bp distal
Rnf135	ring finger protein 135	1291 bp upstream
Rr386348	regulatory region 386348	741 bp downstream
Rr402781	regulatory region 402781	1155 bp upstream
Rr452449	regulatory region 452449	976 bp distal
Rr452450	regulatory region 452450	801 bp proximal
Rr452451	regulatory region 452451	808 bp proximal
Rr452452	regulatory region 452452	995 bp proximal
Tssr3599	transcription start site region 3599	1347 bp upstream
Tssr103509	transcription start site region 103509	1301 bp upstream
Tssr103510	transcription start site region 103510	1326 bp upstream