rs27542739 SNP Detail

Summary

• ID
  rs27542739
• Variation Type
  SNP
• Alleles
  C/G

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

Genome Location and Flanking Sequence

• Location
  Chr4:132292933 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                              CGATAAACGC ACAAACAATT
  GCTCCTCTTG TCAGCATTGA CAGTGACACT CCTGTTCTTA CTGTTTTATG CTCAGCAAAG
  CACGTCCCCC ACCTTCTTAG TTCATCCTTC CACAAACCTA CAAGGTCAGA ATTTTAAACC
  ACAAAGAAGA AAATCGAGAC TACTCAATGG CCCAAGGTCG CCGCAGATTA TAAGCAAAAT
  S
  GCAGACACAG ACGGCCAGTC ATCTCCTTTT CTCTCTGGCT GGGTGTGCAG AGGAAAGGAT
  TCCCTCTTCT CTGGCAGTCA CCATCCCCCA CCCCAGCTCA CTGACCATCT GGAGCGCATT
  CTAGTGCTCT GTCAAGCCGC AAATGAGAGA GCTATGAGTC CTTTATCCCT CAGTATCCCC
  CAAGTCTTCG GCCAGCAGCT                                            
  
  S = C/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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37754559	NES09161220	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	C	G	G	C		C	G	G	G		C
ss321334514	CHEV_4_132121537	CHEVERUD	SCREENING_POP	r	SNP											C					G
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27542739					SNP	G	G	G	G	G	G	C	G	G	C	G	C	G	G	G	C	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
ss37754559	NES09161220	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:132292933 () rs orientation: reverse

Symbol	Name	Function Class
Ptafr	platelet-activating factor receptor	Intron
Rr601015	regulatory region 601015	1545 bp distal
Rr601016	regulatory region 601016	1325 bp distal
Rr601017	regulatory region 601017	1497 bp distal
Rr601018	regulatory region 601018	1342 bp distal
Rr601019	regulatory region 601019	110 bp distal
Rr601020	regulatory region 601020	1689 bp proximal
Tssr39384	transcription start site region 39384	1994 bp downstream
Tssr39385	transcription start site region 39385	1885 bp downstream
Tssr39386	transcription start site region 39386	1546 bp downstream
Tssr39387	transcription start site region 39387	1529 bp downstream
Tssr39388	transcription start site region 39388	1412 bp downstream
Tssr39389	transcription start site region 39389	254 bp downstream
Tssr43688	transcription start site region 43688	1842 bp downstream
Tssr43689	transcription start site region 43689	1869 bp downstream