rs6228240 SNP Detail

Summary

• ID
  rs6228240
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr12:3956762 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCTGAAAGT TGCTCCCCCT
  GAAAGAGTCC CAGGCTTGGA AGACTTGAGG GGCAAGCTAG CCACAGCTGC TGCCTCTAGT
  CCTGTTAGCC TGAATAGACC AAGAACACCC AAGTGCCCTC TTAGTGAGAA GGGAAGCAGG
  GGTCAGTCAG CCATTTCCTC AGCAAATGAT GGTGACTCAT TCCTCTGCCT CTTCATCTTC
  Y
  AGTTCAGCAA AGTGAGGACC ATTACCACCA GGTCAAACTC TATAAAGCAG GGCAAAGACC
  AGCATTTCCC CGTCTTCATG AACGAGAAGG AGGACATCCT GTGGTGCACT GAAATGGAAA
  GGTAGAGTGC TGGGTGCTTG CGTCTGGCCA GGGCTGGGTT AAAAGGAAGG CGGCAGGCTC
  CTCATTTCCC CCAAATTCCC                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8633951	WI_WGS_12_3772384	WI	MOUSE	f	SNP							T		C
ss61337427	NES16942753	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T		T		T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6228240					SNP	T	T	T	T	T	T	T	T	C	T	T	T	C	T	T	C	T

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
ss61337427	NES16942753	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:3956762 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Dnmt3a	DNA methyltransferase 3A			Intron
				Splice-Site
Tssr112533	transcription start site region 112533			1409 bp downstream
Tssr112534	transcription start site region 112534			46 bp upstream
Tssr112535	transcription start site region 112535			840 bp upstream
Tssr112536	transcription start site region 112536			911 bp upstream
Tssr112537	transcription start site region 112537			984 bp upstream
Tssr112538	transcription start site region 112538			1458 bp upstream
Tssr115622	transcription start site region 115622			1073 bp downstream