rs260521829 SNP Detail

Summary

• ID
  rs260521829
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:129007947 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGTGGCCGTG GCGGCTGCAG
  CCGCCTCGGG GAATCTAATA TCAGCTACCT GTCCCTGTCA CTCTTGACAC TTCGCTGTCA
  GGGCTGCAGC GCGGGGGGCG GGCAAAGCGC TCTCGTAGCT GTCCTTATTG GAGGGGTATC
  AAGGGGAGGG AGGGAGGCAA GAAAAGGGTC TTTGCCCATT CTTGTTTCGC TTTGGATCGT
  S
  GAAGTCGGCT CCCTAAAGAG GCTCGCAGCG GTTCCCTCCT GCCCACGTCC CCACGTCTGC
  GTTGGCCCCC CTGCCTTTCG GCTGCCGAAC TCTTTTTGGC TGGAGTCTGA AGCTAGAGGA
  GACAGGGCTG GAGGATTCGG CAGTTTGCGT TCCCTGGCTC TTTCAAGTCT CGGCTAACAC
  GGGGACACTT GGCGCCTAGA                                            
  
  S = C/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
ss359681569	MGP_WTSI_3_128917216	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	C	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	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
rs260521829					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	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
ss359681569	MGP_WTSI_3_128917216	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:129007947 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13808	CpG island 13808			within coordinates
Cpgi13809	CpG island 13809			993 bp proximal
Pitx2	paired-like homeodomain transcription factor 2			Intron
				mRNA-UTR
Rr584970	regulatory region 584970			1466 bp distal
Rr584971	regulatory region 584971			13 bp distal
Tssr31631	transcription start site region 31631			360 bp downstream
Tssr31632	transcription start site region 31632			326 bp downstream
Tssr31633	transcription start site region 31633			within coordinates
Tssr31634	transcription start site region 31634			1178 bp upstream
Tssr31635	transcription start site region 31635			1217 bp upstream