rs249505199 SNP Detail

Summary

• ID
  rs249505199
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:129008689 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGCTCGACCC TCGAGGAAGT
  CGCCCCCTCC TAGGGAAGGC GTGGTCGGAG TGGTCGTTCT GTTAACTCAA GGGAGAACTT
  CCGGGATTCT GGATTCTGGT GACCCCGTCC CTTCCATTCA GTCCCCTGCC GACTTGGTTC
  CCTCCCACGC CGCCGAGTCT ACCTTGGTCT TCCTTCAGTT TCTTGGGTCA CGGATGCCTC
  R
  GCATTTCTAT TCAAGGGCGT TCAGAGGCCG CCCCAACTCT GCCCCCCTCC TCTTGTTAGC
  TTTTACCACC CGGGGAGCCT CACGCCTTTA AAAAGTATTT CTAAAATTAC TTAGAAAGGC
  CCCTGGCAAC GAAGCAAATC TCCCCACCCC GCGAGGAGCT GGAGGACTTG CGTTCCTAAC
  TCTATCCTAA CATCTACTTT                                            
  
  R = A/G
  

  
  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
ss359681575	MGP_WTSI_3_128917958	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs249505199					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss359681575	MGP_WTSI_3_128917958	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:129008689 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13808	CpG island 13808	within coordinates
Cpgi13809	CpG island 13809	251 bp proximal
Gm66168	predicted gene, 66168	1432 bp downstream
Pitx2	paired-like homeodomain transcription factor 2	Intron
Rr584971	regulatory region 584971	755 bp distal
Rr584972	regulatory region 584972	1854 bp proximal
Tssr31631	transcription start site region 31631	1102 bp downstream
Tssr31632	transcription start site region 31632	1068 bp downstream
Tssr31633	transcription start site region 31633	735 bp downstream
Tssr31634	transcription start site region 31634	436 bp upstream
Tssr31635	transcription start site region 31635	475 bp upstream
Tssr35612	transcription start site region 35612	1862 bp downstream