rs239857825 SNP Detail

Summary

• ID
  rs239857825
• 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
  Chr3:32452415 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTGTGTTTA ATGATGCGTT
  GTAAGAAAAG TCCTGGGCCA AGAAAAATAA AAATAAAAGA TACTGTGTTG CTAAATTAAT
  TTGGACAAAT CAAAACACGG TGTTTTGATT AGTGGGCTCC CACTGCAACT GCAATCCAAG
  AATCTACCAC CGTGTCTGTG AATTCAAGTT GTAAGGTATT TTTGTTTCAA ACTAAAGCGT
  Y
  GGGTTCTGGT TGACAGCGTA GATCACGGTA TAAATAAACA TCACGTGTTC TGGAAATTTT
  TAATTACCAG ATTAACTGTT CTGCAGTATC TGTCAAAATT ATCTGAAAGG GTACTGTTGG
  TTTGGTGTTT GGTTTTGTTT TTTGGGTTTG GGTTTTGTTG ACTTAGGGTT TTGGGTTTTT
  TTTTTGTTTT TTTGTTTTTT                                            
  
  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
ss357464087	MGP_WTSI_3_32297188	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
rs239857825					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
ss357464087	MGP_WTSI_3_32297188	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:32452415 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13056	CpG island 13056			193 bp distal
Gm56797	predicted gene, 56797			1071 bp downstream
Gm65709	predicted gene, 65709			1299 bp upstream
Pik3ca	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha			Intron
				Noncoding-Transcript-Variant
Rr397633	regulatory region 397633			1113 bp downstream
Rr574952	regulatory region 574952			1603 bp distal
Rr574953	regulatory region 574953			1191 bp distal
Rr574954	regulatory region 574954			585 bp distal
Rr574955	regulatory region 574955			854 bp distal
Rr574956	regulatory region 574956			within coordinates
Tssr28746	transcription start site region 28746			1179 bp downstream
Tssr28747	transcription start site region 28747			1122 bp downstream
Tssr28748	transcription start site region 28748			1087 bp downstream
Tssr28749	transcription start site region 28749			1001 bp downstream
Tssr28750	transcription start site region 28750			970 bp downstream
Tssr28751	transcription start site region 28751			194 bp upstream
Tssr32929	transcription start site region 32929			40 bp upstream