rs27960543 SNP Detail

Summary

• ID
  rs27960543
• Variation Type
  SNP
• Alleles
  G/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
  Chr2:68943639 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAATGCCAAG TGACAGGAAT
  GCATCGGCAG GTGCGTGCAT TGAGACTCCC ACCAATGCCA AGTGACAGGA ATGCATGGGC
  AGGTGCGTGC ATTGAGACTC CCACCAATGC CAAGTGACAG GAATGCATGG GCAGGTGCGT
  GCATTGAGAC TCCCACCAAT GCCGAGAAGT TGCAAAAGCC TGGGCCACAG GGTGAGTTAC
  K
  GTGTCTGCAT GGAATCGGGC ACTCTCGGAT TGCTGGGAAG CGATGAGGAG GCGCTGTTAG
  CCTGGAGCTG GTCTCCTTTA GCTCATTCAC TCACGGCCTT TTAGGCTTCT GGAACTCTGG
  TAAAAGAAAG CCAGATGCTA ACATTTTTCT GCTTTCAGTT TACTAATGAC TGTTAGATCA
  GCTCTTCCCA TCCCTTCTTC                                            
  
  K = G/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
ss38132465	NES09289123	PERLEGEN	MM_PANEL2	f	SNP	G	T	T	T	T	T	T	T	T	G	T	T	G	T	G
ss146726989	ENSMUSSNP3898147	ENSEMBL	ENSEMBL_Sanger	f	SNP		T						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
rs27960543					SNP	G	T	T	T	T	T	T	T	T	G	T	T	G	T	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
ss38132465	NES09289123	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:68943639 () rs orientation: forward

Symbol	Name	Function Class
Cers6	ceramide synthase 6	within coordinates
Rr44228	regulatory region 44228	239 bp distal
Rr44229	regulatory region 44229	562 bp proximal
Rr50098	regulatory region 50098	562 bp proximal
Tssr18100	transcription start site region 18100	712 bp downstream
Tssr18101	transcription start site region 18101	265 bp upstream
Tssr18102	transcription start site region 18102	287 bp upstream
Tssr18103	transcription start site region 18103	509 bp upstream
Tssr18104	transcription start site region 18104	1426 bp upstream