rs259597937 SNP Detail

Summary

• ID
  rs259597937
• Variation Type
  SNP
• Alleles
  A/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
  Chr11:96243246 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGAGGGGCA GTTGGAAGAG
  AAGGGGAGAA TGTGAGGTGA TGGGGCTCCT GGTGGGGTTC CCTAGGTCGA CGGATCTGGG
  GCGAGGGAAG CAGAGTATCC CGCTGGGGTT CAGGCCTAGC CACTGTTAGC TTCCCCACCC
  CCAGAAAATT TTGGAAGCTG ATTGAGGGTG GGGAGGATGC TTTTTTTTTT TTTTTTTTTT
  W
  AAATGTGCTT AGAAAAAAAT GATTCGATTG AAGGGTTTCC CCGGTTTCTG TGTAGAGGAA
  TGAAGCGTGT CTGGGATTGA ATCTGGAGCC TGGAAAAGAT GCGATGCCTC TAGCTCTCCT
  AAAGCTAGGG AAGAAGAGGG AATTCAAAAG CTAGGAAGGA AAGGGGTGAA GAACAATCTA
  TGATCCCTCT CTCCCCAGGT                                            
  
  W = A/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
ss384367049	MGP_WTSI_11_96213734	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T
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
rs259597937					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	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
ss384367049	MGP_WTSI_11_96213734	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96243246 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3656	CpG island 3656	244 bp distal
Cpgi3657	CpG island 3657	248 bp proximal
Hoxb2	homeobox B2	Intron
Hoxb3os	homeobox B3 and homeobox B2, opposite strand	within coordinates
Rr141	regulatory region 141	1972 bp distal
Rr386516	regulatory region 386516	1982 bp upstream
Rr455384	regulatory region 455384	1952 bp distal
Rr455385	regulatory region 455385	779 bp distal
Tssr104519	transcription start site region 104519	785 bp downstream
Tssr104520	transcription start site region 104520	546 bp downstream
Tssr104521	transcription start site region 104521	512 bp downstream
Tssr104522	transcription start site region 104522	452 bp downstream
Tssr104523	transcription start site region 104523	402 bp downstream
Tssr104524	transcription start site region 104524	350 bp downstream
Tssr104525	transcription start site region 104525	282 bp downstream
Tssr104526	transcription start site region 104526	444 bp upstream
Tssr104527	transcription start site region 104527	466 bp upstream
Tssr104528	transcription start site region 104528	655 bp upstream
Tssr104529	transcription start site region 104529	707 bp upstream
Tssr104530	transcription start site region 104530	735 bp upstream
Tssr104531	transcription start site region 104531	904 bp upstream