rs252240239 SNP Detail

Summary

• ID
  rs252240239
• 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
  Chr3:17843046 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCCCAGAAGA TGGGAGCACT
  AGGAAGGAGA AAAACACTCC TAAGTATCTT CCTAGCAGTG GCCTTGGGGG AGGGGGGGGT
  GGCAGGTGAG TGAGAGAGGA AGGTGGCCTT GCCACCCCAC CACCTTCATT GAGGTAGAGC
  AATGGCTTGG TCTGGATTCT TTCTGAAAGA GAAACTGCAG GAATGCAGAG TTGCTTTTTG
  Y
  GCCCCAACCT ACTTAAAGGA GTGGGAGCCA AACCCCTGCT CCCAACAACA AGCAGCATTT
  TCCTTATCAG AAGCCCTCTG GGACTCAGCA AGCTTGATAG GCTCTGGCTC TGATGTCCCA
  TAAGGCCCAC TCTGTGGCTG GAAGAAACAT GATCAAAACC CATGGAACTC AGACTTCACT
  GACCACAGAG TCCTGCCTGG                                            
  
  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
ss357118644	MGP_WTSI_3_17688882	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
rs252240239					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
ss357118644	MGP_WTSI_3_17688882	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:17843046 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12994	CpG island 12994	1751 bp distal
Cpgi12995	CpG island 12995	1532 bp proximal
Gm10742	predicted gene 10742	1984 bp upstream
Gm56811	predicted gene, 56811	1744 bp upstream
Gm66000	predicted gene, 66000	within coordinates
Mir124-2hg	Mir124-2 host gene (non-protein coding)	1039 bp upstream
Rr573842	regulatory region 573842	1755 bp distal
Rr573843	regulatory region 573843	1254 bp distal
Rr573844	regulatory region 573844	within coordinates
Rr573845	regulatory region 573845	451 bp proximal
Rr573846	regulatory region 573846	575 bp proximal
Rr573847	regulatory region 573847	1181 bp proximal
Rr573848	regulatory region 573848	1351 bp proximal
Tssr28480	transcription start site region 28480	845 bp upstream
Tssr28481	transcription start site region 28481	1010 bp upstream
Tssr28482	transcription start site region 28482	1074 bp upstream
Tssr28483	transcription start site region 28483	1169 bp upstream
Tssr28484	transcription start site region 28484	1238 bp upstream
Tssr32678	transcription start site region 32678	725 bp downstream