rs227407287 SNP Detail

Summary

• ID
  rs227407287
• Variation Type
  SNP
• Alleles
  C/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
  Chr2:30305595 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGGGTAAA GACTGCGCCA
  CTGCTGGGGT GCTGGGGTCA GTGGGTTCGC GGCTCCGGTT CTAGGTTCAA GGTCGCCGAG
  TCACTGCCGC TAGCCAGTAG AGGCGGCCCC GCGGCCACCG GGCCCGGCGG GCTGCCGGTG
  GGGCAGGACT CACGGGGCGG AGCTTTGGTG GCTCGCAGTC CCCGGCCGCT CGCCCCGATC
  Y
  CGGGGTGGGC CCAAGCCGGG GAGTGGCCGC AGAGGGCGGG GCTTGCGGAG ACGGACCTCT
  AGCTCAGCTG TTAGCAGCCC GGCGCTGGGC TCCCGTCACG GGGTCACAAC GGTAGGCGCT
  GTCCCGCTCG TGCTCTCCGC CTCCGAAAGC CACCTTAGCT GTCGAGGCGG TCACGTGCGT
  TCAAGTCTGA CTGGTGTCCT                                            
  
  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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss353515399	MGP_WTSI_2_30271103	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	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs227407287					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	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
ss353515399	MGP_WTSI_2_30271103	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:30305595 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11436	CpG island 11436			within coordinates
Crat	carnitine acetyltransferase			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Gm16323	predicted gene 16323			245 bp downstream
Ptpa	protein phosphatase 2 protein activator			467 bp upstream
Rr554310	regulatory region 554310			1857 bp distal
Rr554311	regulatory region 554311			1195 bp distal
Rr554312	regulatory region 554312			70 bp distal
Rr554313	regulatory region 554313			within coordinates
Rr554314	regulatory region 554314			570 bp proximal
Tssr17115	transcription start site region 17115			35 bp upstream
Tssr17116	transcription start site region 17116			448 bp upstream
Tssr17117	transcription start site region 17117			497 bp upstream
Tssr17118	transcription start site region 17118			513 bp upstream
Tssr17119	transcription start site region 17119			604 bp upstream
Tssr23369	transcription start site region 23369			1465 bp upstream
Tssr23370	transcription start site region 23370			1403 bp upstream
Tssr23371	transcription start site region 23371			215 bp upstream
Tssr23372	transcription start site region 23372			173 bp upstream
Tssr23373	transcription start site region 23373			154 bp upstream
Tssr23374	transcription start site region 23374			134 bp upstream
Tssr23375	transcription start site region 23375			78 bp upstream
Tssr23376	transcription start site region 23376			23 bp upstream
Tssr23377	transcription start site region 23377			within coordinates
Tssr23378	transcription start site region 23378			31 bp downstream
Tssr23379	transcription start site region 23379			51 bp downstream
Tssr23380	transcription start site region 23380			184 bp downstream
Tssr23381	transcription start site region 23381			420 bp downstream