rs225804820 SNP Detail

Summary

• ID
  rs225804820
• 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
  Chr2:30303604 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACAGGAGTAC CGTCTCTCAG
  GGGCCTATAT ATGCAGGAAG GCTAGGAAAG GGTGGGGGTG TAGATGAGTC ACATTATTGG
  GGTGGCAGAG GTAAGGGGAC CTCCCACCTG TCAGGACGCA CGAGAGAGAT GGCAGCTGAC
  TCTTTAAGCG AAGCCCCCCC ATGTCTCACC CCCCCCCCCC CCGCTTCCAG CTTAAGAAAT
  Y
  GGAGAGAACT GGAAATGGGT AAGCTGGTGA CAGCACCTCT GGGGGAGGCT TCAGCCTCTG
  TGCTTTCTCT CCACTGTGGG GCGGTGGTGA GGGGCGTGGG TAGTGCTGCA GCAAGAGCGC
  TGAGTGGCCT GGCATGGAGG ATGAGAGGTG GCAGAGAGAG GCAGGAAGAG GGAGTCCCGG
  AGACTCTGGA GGTGGCAGAA                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	LG/J	LP/J	MA/MyJ	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
ss353515376	MGP_WTSI_2_30269112	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	LG/J	LP/J	MA/MyJ	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
rs225804820					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	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
ss353515376	MGP_WTSI_2_30269112	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:30303604 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11436	CpG island 11436			1499 bp proximal
Crat	carnitine acetyltransferase			Intron
				Noncoding-Transcript-Variant
Gm16323	predicted gene 16323			124 bp upstream
Rr554310	regulatory region 554310			34 bp proximal
Rr554311	regulatory region 554311			135 bp proximal
Rr554312	regulatory region 554312			1092 bp proximal
Rr554313	regulatory region 554313			1922 bp proximal
Tssr23368	transcription start site region 23368			293 bp upstream
Tssr23369	transcription start site region 23369			512 bp downstream
Tssr23370	transcription start site region 23370			577 bp downstream
Tssr23371	transcription start site region 23371			1710 bp downstream
Tssr23372	transcription start site region 23372			1797 bp downstream
Tssr23373	transcription start site region 23373			1826 bp downstream
Tssr23374	transcription start site region 23374			1846 bp downstream
Tssr23375	transcription start site region 23375			1868 bp downstream
Tssr23376	transcription start site region 23376			1917 bp downstream
Tssr23377	transcription start site region 23377			1980 bp downstream