rs47493994 SNP Detail

Summary

• ID
  rs47493994
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:90521402 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CATTGGCTCC GTGAGTAGCC
  CCTGTCCCGG TTCCCCCTCC TGCCTCTCAT CTGAGTGGCA TTTAATCACA GTTCCTGATC
  TTACTTCCTG TGGAGGGATG CTCGTATGCC TCCATGCTGC CCTGTCCCCT GAGGGAGGAG
  CAGGGGCTGA GGAGAGTAAA TCAAGGTAAA CCCAAGCTGA AGGCCCATCT TTGGTCCCAA
  Y
  GAGCACTTGT TTGAGAGAGG ACTTCCAGGG AAGGGGTAAG GAATCTAGGG TGTTGGCCAC
  CACTGAGTGT GGACTTCTCC TTCTTAATGT ATTAGAAGCT GCAGGATGCT GAAATTGCAA
  GGCTGATGGA TGATCTGGAC CGTAACAAGG ATCAGGAAGT AAACTTCCAG GAGTATGTCG
  CCTTCCTGGG GGCCTTGGCT                                            
  
  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	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
ss60424267	NES15923482	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C
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
rs47493994					SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	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
ss60424267	NES15923482	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90521402 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13468	CpG island 13468			729 bp distal
Gm57853	predicted gene, 57853			Intron
				Noncoding-Transcript-Variant
Rr397814	regulatory region 397814			1326 bp upstream
Rr580416	regulatory region 580416			1712 bp distal
Rr580417	regulatory region 580417			780 bp distal
Rr580418	regulatory region 580418			1286 bp distal
Rr580419	regulatory region 580419			1487 bp proximal
S100a6	S100 calcium binding protein A6 (calcyclin)			Intron
				Noncoding-Transcript-Variant
Tssr30242	transcription start site region 30242			1799 bp downstream
Tssr30243	transcription start site region 30243			1230 bp downstream
Tssr30244	transcription start site region 30244			1214 bp downstream
Tssr30245	transcription start site region 30245			1116 bp downstream
Tssr30246	transcription start site region 30246			938 bp downstream
Tssr30247	transcription start site region 30247			903 bp downstream
Tssr30248	transcription start site region 30248			803 bp downstream
Tssr30249	transcription start site region 30249			559 bp downstream
Tssr30250	transcription start site region 30250			326 bp downstream
Tssr30251	transcription start site region 30251			242 bp downstream
Tssr30252	transcription start site region 30252			251 bp upstream
Tssr30253	transcription start site region 30253			275 bp upstream
Tssr34246	transcription start site region 34246			316 bp downstream