rs27960563 SNP Detail

Summary

• ID
  rs27960563
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:68942163 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGCTGAACT GCCAGACAGA
  GCATATCCCA AATTATCATT AGATTGTGTC ATTGGCGTCC AATGCTGATG AACAAGGCAG
  CAAAGGCACG GACCAAGAAA GACCAGTCAT CTTTAGTCCA TATGGTAGGT GAGTCTCAAA
  CTGGTAAACT CCTGTCTGAG TCATACACTT AGCAAAAGCA CTGCGTGCTA CCATGGTCCC
  W
  AAAGGTGATG ACATAGCCTA GGTACAGAGG CGGTACTGTC TGCTGTGTGT AAGTACACTT
  ATTGATGTTC GCAGAGTGAC AAAAATGTGT CCCTGCTGTG ACATGACATA GGCCTATACT
  TTTTGAGCAA ATGTATTGCC TTTCCTTCAC TTTAGATAGA AAGGTCTGAA TCTTCCACCT
  TGCATTTAAA TCTCATTGTT                                            
  
  W = A/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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38132485	NES09289102	PERLEGEN	MM_PANEL2	f	SNP	T	A	A	A	A	A		A	A	A	T	A	A	T	A	A
ss45331826	mCV23780212	ABI	CRAMUS_MOUSE	f	SNP	T	A					A		A
ss146726984	ENSMUSSNP294192	ENSEMBL	ENSEMBL_Sanger	f	SNP		A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27960563					SNP	T	A	A	A	A	A	A	A	A	A	T	A	A	T	A	A

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
ss38132485	NES09289102	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:68942163 () rs orientation: forward

Symbol	Name	Function Class
Cers6	ceramide synthase 6	within coordinates
Rr44228	regulatory region 44228	838 bp proximal
Rr62255	regulatory region 62255	1564 bp distal
Tssr18097	transcription start site region 18097	1927 bp downstream
Tssr18098	transcription start site region 18098	1864 bp downstream
Tssr18099	transcription start site region 18099	641 bp downstream
Tssr18100	transcription start site region 18100	719 bp upstream
Tssr18101	transcription start site region 18101	1741 bp upstream
Tssr18102	transcription start site region 18102	1763 bp upstream
Tssr18103	transcription start site region 18103	1985 bp upstream