rs253546837 SNP Detail

Summary

• ID
  rs253546837
• 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
  Chr2:30305699 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCCCCGCGG CCACCGGGCC
  CGGCGGGCTG CCGGTGGGGC AGGACTCACG GGGCGGAGCT TTGGTGGCTC GCAGTCCCCG
  GCCGCTCGCC CCGATCTCGG GGTGGGCCCA AGCCGGGGAG TGGCCGCAGA GGGCGGGGCT
  TGCGGAGACG GACCTCTAGC TCAGCTGTTA GCAGCCCGGC GCTGGGCTCC CGTCACGGGG
  Y
  CACAACGGTA GGCGCTGTCC CGCTCGTGCT CTCCGCCTCC GAAAGCCACC TTAGCTGTCG
  AGGCGGTCAC GTGCGTTCAA GTCTGACTGG TGTCCTTGAA CGTCACTCTA GGAATGGCAG
  GAGAACACAA CTGTTGACTG GGGACTGTCT CAGATTGCTT GGGTGGAGGC ATGCACAAAG
  AAGATGACAG GTGGCCTTGC                                            
  
  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	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
ss353515403	MGP_WTSI_2_30271207	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	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	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
rs253546837					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	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
ss353515403	MGP_WTSI_2_30271207	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:30305699 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11436	CpG island 11436	within coordinates
Crat	carnitine acetyltransferase	mRNA-UTR
Gm16323	predicted gene 16323	349 bp downstream
Ptpa	protein phosphatase 2 protein activator	363 bp upstream
Rr554310	regulatory region 554310	1961 bp distal
Rr554311	regulatory region 554311	1299 bp distal
Rr554312	regulatory region 554312	174 bp distal
Rr554313	regulatory region 554313	within coordinates
Rr554314	regulatory region 554314	466 bp proximal
Tssr17115	transcription start site region 17115	4 bp downstream
Tssr17116	transcription start site region 17116	344 bp upstream
Tssr17117	transcription start site region 17117	393 bp upstream
Tssr17118	transcription start site region 17118	409 bp upstream
Tssr17119	transcription start site region 17119	500 bp upstream
Tssr23369	transcription start site region 23369	1569 bp upstream
Tssr23370	transcription start site region 23370	1507 bp upstream
Tssr23371	transcription start site region 23371	319 bp upstream
Tssr23372	transcription start site region 23372	277 bp upstream
Tssr23373	transcription start site region 23373	258 bp upstream
Tssr23374	transcription start site region 23374	238 bp upstream
Tssr23375	transcription start site region 23375	182 bp upstream
Tssr23376	transcription start site region 23376	127 bp upstream
Tssr23377	transcription start site region 23377	75 bp upstream
Tssr23378	transcription start site region 23378	63 bp upstream
Tssr23379	transcription start site region 23379	within coordinates
Tssr23380	transcription start site region 23380	80 bp downstream
Tssr23381	transcription start site region 23381	316 bp downstream