rs259543531 SNP Detail

Summary

• ID
  rs259543531
• 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
  Chr1:87051940 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGGGTTTG GAAGTCCAAT
  GCCCTGGCTC TTATATGTGC TTGAATCTCC TAAGGATCCT CTTCACTACA TCACATGGTG
  AATAGCATCA TGAGGAGACA GAGAGAACGC TCCTAAGGGA GCCAAAAATG AAGGAGAGGC
  CCGTCTTGAT CAGTCATCAT AACCCCCTCT AGTAGGGACT AAGTAGGATC TCATGAAAAA
  Y
  ACCATAACCC CTTCTAAGAA AACAGCCTCA AAGGACCTAG TCACCTCTCC CTTCCATCAC
  CTCCCAACAT CATCATCACA CTAGGGACCA AGCCTGCAAC TTGTGCACTT CAGGGACAGG
  CTCCATCCAT ATTCAAGCCA CAGCACATGG TTGCTCTTGT TGGAGGCTGC TGTGCGATGT
  TTGTCTCAAC ATAGAAGATA                                            
  
  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
ss350380257	MGP_WTSI_1_89020793	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	T	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
rs259543531					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss350380257	MGP_WTSI_1_89020793	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:87051940 () rs orientation: forward

Symbol	Name	Function Class
Akp3	alkaline phosphatase 3, intestine, not Mn requiring	755 bp upstream
Tssr7781	transcription start site region 7781	728 bp upstream
Tssr7782	transcription start site region 7782	1178 bp upstream
Tssr7783	transcription start site region 7783	1470 bp upstream
Tssr7784	transcription start site region 7784	1713 bp upstream
Tssr7785	transcription start site region 7785	1749 bp upstream
Tssr7786	transcription start site region 7786	1779 bp upstream
Tssr12838	transcription start site region 12838	1500 bp downstream
Tssr12839	transcription start site region 12839	1515 bp downstream
Tssr12840	transcription start site region 12840	1528 bp downstream