rs260645652 SNP Detail

Summary

• ID
  rs260645652
• 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
  Chr8:47742234 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCCAGTGTC ATGCTAATCT
  CGGGGCAGCG CGGAGGCTCG GCGTAGATCC CCGCAGCAAA GCCCCAGCGG CGACGGCGAC
  GGCGGCGGCG GCGGCGGCGG CGCGGGGCCT GGGCCCTGCG GATGACACCG CGCGGATCGT
  TCCACGTCTT TCCGATGGTC CCTCCCCCTC GCTCCGAGGG CTAGCCTTCG TGGGAACGCG
  Y
  TGATCTGCGG CGCCCGGCCT GGTCCACCTG CGCCCAGCCG GAGACGCGGG GCGCCGCGAA
  CGCGCGGGGA CGCCAGGCCC ACGCCGACTG CCACGCGCCA ACGGCCTGCG CCCTCTGCGA
  TCCTGAGTGG AAGTCACTCC CCAATGGCCT GGTTGCGCTG GCGGGCCCGG GGCCTCTGCA
  CCGCCGGGCC CTGCACAGCT                                            
  
  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	129S1/SvImJ	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	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
ss374556875	MGP_WTSI_8_48374553	EVA_MGPV3	EVA_MGPV3	f	SNP	T	C	C	C	C	C	C	C	C	C	C	C	C	C	T	T	T	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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	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
rs260645652					SNP	T	C	C	C	C	C	C	C	C	C	C	C	C	C	T	T	T	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	T

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
ss374556875	MGP_WTSI_8_48374553	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr8:47742234 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi20325	CpG island 20325			1737 bp distal
Cpgi20326	CpG island 20326			within coordinates
Rr663192	regulatory region 663192			829 bp distal
Rr663193	regulatory region 663193			153 bp proximal
Stox2	storkhead box 2			Intron
				mRNA-UTR
Tssr2563	transcription start site region 2563			441 bp downstream
Tssr77334	transcription start site region 77334			780 bp downstream
Tssr81223	transcription start site region 81223			1039 bp upstream
Tssr81224	transcription start site region 81224			904 bp upstream
Tssr81225	transcription start site region 81225			723 bp upstream
Tssr81226	transcription start site region 81226			124 bp downstream
Tssr81227	transcription start site region 81227			155 bp downstream
Tssr81228	transcription start site region 81228			195 bp downstream
Tssr81229	transcription start site region 81229			214 bp downstream