rs254949909 SNP Detail

Summary

• ID
  rs254949909
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr12:76302691 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCCCAATGT GCAATTGCAA
  TAGACTGCCT GGGGTGGCTG CATTCCTAGG TTTGGCGGCA AGTCCTGACC TGACCTTGTT
  CTCAAAAGTG TAGCTGCTGG CATCATTCTG CCTAGACACG GGCTACCTGA GGAGTCCAAC
  CTCAGAAACC CAGCATAGCC GCTTGTCTGG CAATTTGGTG GTGATTCGGT TGTGGCAAGA
  K
  TTGACACGGG TGATTGGTCA AATCAGAGAG AGGGTCTCTT TCTAATTTTT TGTTTGTTTG
  TTTTCTGACA AAGGGTCTCT CCACGGAGCC CTGGCTGTCC TGCAACTTAC TCTGTAGACC
  ATGCTGATCT TGAACTCACA GAGATCCCCT CCTGCCTCTG CCTCCTGAGT GCTGGGATTA
  ATGGCTTGGG CTACCACACC                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss386546319	MGP_WTSI_12_77356904	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs254949909					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	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
ss386546319	MGP_WTSI_12_77356904	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:76302691 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4777	CpG island 4777	250 bp distal
Gm47525	predicted gene, 47525	180 bp upstream
Mthfd1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent), methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthase	Intron
Rr403350	regulatory region 403350	571 bp downstream
Rr468112	regulatory region 468112	494 bp distal
Rr468113	regulatory region 468113	within coordinates
Tssr113934	transcription start site region 113934	678 bp downstream
Tssr113935	transcription start site region 113935	660 bp downstream
Tssr113936	transcription start site region 113936	610 bp downstream
Tssr113937	transcription start site region 113937	580 bp downstream
Tssr113938	transcription start site region 113938	548 bp downstream
Tssr113939	transcription start site region 113939	481 bp downstream
Tssr113940	transcription start site region 113940	445 bp downstream
Tssr113941	transcription start site region 113941	423 bp downstream
Tssr116711	transcription start site region 116711	860 bp upstream
Tssr116712	transcription start site region 116712	807 bp upstream