rs253898438 SNP Detail

Summary

• ID
  rs253898438
• 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
  Chr3:32450812 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCCTGAGTGG TGGGATTACT
  GGGGTTGCAT CGTTTAAAAG TCAACATATC TCATTCCTTG CAACCAAAAC CTTAGGCAGT
  ACCTCACCAC GTTGAATCGT ACTTAAAGCC AGCATAACTA TTTTGAAGCC TCAAAAATGA
  AAAAGTAACA CAGCTTCTAT AGCTGGGATA CAAGGAAAAC AGACTGGACA TAGCCAAAGA
  Y
  CTCTAAAGAC TGCAGAGGGC TATCGGAGTG GGTTACAATT TAAACCAGTG TTTGCAAAAG
  ACTTCTTCCT GAAATCCGCA TCCAATTTGG GAGAGCCACC CTTCATCTTG CCCTCCTTTC
  GTTTCCTCTT TGGGCATCCC TCGCTCCCGA CTTTCCTGTC TGCTTCTCCC AAGACAGACT
  GCCGCTGGAA GAAGCTAATA                                            
  
  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
ss357464079	MGP_WTSI_3_32295585	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
rs253898438					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
ss357464079	MGP_WTSI_3_32295585	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:32450812 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13056	CpG island 13056	24 bp proximal
Gm56797	predicted gene, 56797	402 bp upstream
Gm65709	predicted gene, 65709	within coordinates
Pik3ca	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	391 bp upstream
Rr397633	regulatory region 397633	189 bp upstream
Rr574952	regulatory region 574952	within coordinates
Rr574953	regulatory region 574953	1 bp proximal
Rr574954	regulatory region 574954	518 bp proximal
Rr574955	regulatory region 574955	728 bp proximal
Rr574956	regulatory region 574956	1019 bp proximal
Tssr28746	transcription start site region 28746	363 bp upstream
Tssr28747	transcription start site region 28747	444 bp upstream
Tssr28748	transcription start site region 28748	487 bp upstream
Tssr28749	transcription start site region 28749	575 bp upstream
Tssr28750	transcription start site region 28750	605 bp upstream
Tssr28751	transcription start site region 28751	1797 bp upstream
Tssr32929	transcription start site region 32929	1554 bp downstream