rs252260409 SNP Detail

Summary

• ID
  rs252260409
• Variation Type
  SNP
• Alleles
  A/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
  Chr1:132287007 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTGGCTACT CAGCTCTTCT
  CTCCCCAGGA CCAAGGCGCC AGTCAGTAGC GACATGCAGC CCACCCATGT GTCCAGTCCC
  GCTCTCATCT TAACCCCCGT GATAGCGCAG CATTTCTCTG TGACAGCCTT GTGCTAAGCA
  TTGCCTGCAT CACCTCAGAG GATTCTCACA CAGCCTCATG AGACAGGACG AGGTCATCCG
  W
  ATTGACAGGT GGAAGAATGA GACAGAGACT ACTAAGGAAC CTGTACAGGA CCTCATGGCT
  CTTGTCAGGC AATTCAGGAT TAAGTGACTT CAACCCAGAT TCCTAAACCC TGGCTAAGAT
  GCTCTCTGGG TAGCAGAGAT CCTGGGGTAC AAAGCATGTG ACCTCTGCTA TGAAAATCAC
  CACGGATCAA AAGACGACTC                                            
  
  W = A/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
ss351471094	MGP_WTSI_1_134255846	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	A	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs252260409					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	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
ss351471094	MGP_WTSI_1_134255846	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:132287007 () rs orientation: forward

Symbol	Name	Function Class
Cpgi727	CpG island 727	1227 bp proximal
Tmcc2	transmembrane and coiled-coil domains 2	within coordinates
Tssr13633	transcription start site region 13633	1767 bp upstream
Tssr13634	transcription start site region 13634	1714 bp upstream
Tssr13635	transcription start site region 13635	1609 bp upstream
Tssr13636	transcription start site region 13636	1013 bp upstream
Tssr13637	transcription start site region 13637	366 bp upstream
Tssr13638	transcription start site region 13638	1046 bp downstream
Tssr13639	transcription start site region 13639	1402 bp downstream
Tssr13640	transcription start site region 13640	1830 bp downstream