rs247111829 SNP Detail

Summary

• ID
  rs247111829
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr6:52182804 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTTTGGGTC CTGAAAGCTG
  CGAGGTGGAT TGCGTCCGAG CTGTATGAGG CTGAGAGTGG AAATCGGGAG CTGGGAGCCT
  GCGGGAGCCT AGTCGCTCCC AAGCTGTAAA CCCAGGTTGG CTTGCCTCGG CTGAGGCTGC
  TACTCTCCCA CTGACGGTTA CGCGCCGATA GAGAGATTTG GTTCTGTCGG GGAAGGGGGG
  W
  GTTCCTCTTT GTTCCTCAGG CTTCTTGATT AGGGGCATCC TGAGAGGCCG GGACAGGGCT
  GGGGCCCAGC TCGTAGACCC TTTCTTTTCA GTAGCCAGAG CCGATTTGGC GATGCCCTTT
  AGAATTTGAT GGCGAGGGAC CAAGGCGGAA AAGCCCAGGC ACCAAACAGG GCACTGCCTG
  GGGCTCCTTC TTCCCCCACA                                            
  
  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
ss368308691	MGP_WTSI_6_52155823	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	A	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	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
rs247111829					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	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
ss368308691	MGP_WTSI_6_52155823	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52182804 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17423	CpG island 17423	952 bp distal
Cpgi17424	CpG island 17424	within coordinates
Gm28308	predicted gene 28308	within coordinates
Hoxa3	homeobox A3	within coordinates
Hoxa5	homeobox A5	1367 bp upstream
Hoxa6	homeobox A6	464 bp downstream
Hoxaas3	Hoxa cluster antisense RNA 3	within coordinates
Rr630365	regulatory region 630365	1266 bp distal
Rr630366	regulatory region 630366	747 bp distal
Rr630367	regulatory region 630367	1149 bp distal
Tssr60991	transcription start site region 60991	1574 bp upstream
Tssr60992	transcription start site region 60992	1562 bp upstream
Tssr60993	transcription start site region 60993	1486 bp upstream
Tssr60994	transcription start site region 60994	1416 bp upstream
Tssr60995	transcription start site region 60995	1361 bp upstream