rs249999305 SNP Detail

Summary

• ID
  rs249999305
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr5:110432787 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGGAATGGT GGCGCCCCTA
  GTGGGCAGAT CTTCCCAGCT CAAAGAAGAT AATCAAGATA AGCCCCTCAG GCATGCTTAA
  TTCCTAAATG TTATCAAGTT GACAACTAGC TTTAACCACC ACAGCTGTCT TCTAAAAAGC
  TATAAATCCA AAACTTTTAG TATGGATCAT AAGGACCCTC TTGACTTGAC CCCTGGTTAC
  Y
  TCTTCCTATC TACTCTCCCT GGTCATTTTC TCCACCAGAG TCCTTCTCTT CACCCCTCCG
  ACATTCTCTG AATTCTTCCC CCAGAACTTT TACACTTACT GTGCCCTGTA AACAACCGCT
  TCTCTTCTCT GTGCTTCTGA CCAACGTCAA CAACCCAGGA GAAATTTCCC TAACTGCTCT
  AAGTTATACA TTTATCTGCC                                            
  
  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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss366233027	MGP_WTSI_5_110713940	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	C	C	C	C	C	C	C	C	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
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
rs249999305					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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

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
ss366233027	MGP_WTSI_5_110713940	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:110432787 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16226	CpG island 16226	720 bp proximal
Pole	polymerase (DNA directed), epsilon	1398 bp upstream
Pxmp2	peroxisomal membrane protein 2	within coordinates
Rr399252	regulatory region 399252	113 bp downstream
Rr616864	regulatory region 616864	within coordinates
Rr616865	regulatory region 616865	1255 bp proximal
Rr616866	regulatory region 616866	1431 bp proximal
Tssr47885	transcription start site region 47885	1405 bp upstream
Tssr52499	transcription start site region 52499	1089 bp downstream
Tssr52500	transcription start site region 52500	1122 bp downstream
Tssr52501	transcription start site region 52501	1225 bp downstream
Tssr52502	transcription start site region 52502	1238 bp downstream