rs27960542 SNP Detail

Summary

• ID
  rs27960542
• 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
  Chr2:68943659 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCATCGGCAG GTGCGTGCAT
  TGAGACTCCC ACCAATGCCA AGTGACAGGA ATGCATGGGC AGGTGCGTGC ATTGAGACTC
  CCACCAATGC CAAGTGACAG GAATGCATGG GCAGGTGCGT GCATTGAGAC TCCCACCAAT
  GCCGAGAAGT TGCAAAAGCC TGGGCCACAG GGTGAGTTAC TGTGTCTGCA TGGAATCGGG
  Y
  ACTCTCGGAT TGCTGGGAAG CGATGAGGAG GCGCTGTTAG CCTGGAGCTG GTCTCCTTTA
  GCTCATTCAC TCACGGCCTT TTAGGCTTCT GGAACTCTGG TAAAAGAAAG CCAGATGCTA
  ACATTTTTCT GCTTTCAGTT TACTAATGAC TGTTAGATCA GCTCTTCCCA TCCCTTCTTC
  TCTGTCTGGT GCCATTTTCA                                            
  
  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	129X1/SvJ	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
ss38132464	NES09289124	PERLEGEN	MM_PANEL2	f	SNP	T		C	C	C	C	C	C	C	C	T	C	C	T	C	C
ss146726991	ENSMUSSNP6363798	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	C						C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	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
rs27960542					SNP	T	C	C	C	C	C	C	C	C	C	T	C	C	T	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
ss38132464	NES09289124	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:68943659 () rs orientation: forward

Symbol	Name	Function Class
Cers6	ceramide synthase 6	within coordinates
Tssr18100	transcription start site region 18100	732 bp downstream
Tssr18101	transcription start site region 18101	245 bp upstream
Tssr18102	transcription start site region 18102	267 bp upstream
Tssr18103	transcription start site region 18103	489 bp upstream
Tssr18104	transcription start site region 18104	1406 bp upstream