rs262154940 SNP Detail

Summary

• ID
  rs262154940
• Variation Type
  SNP
• Alleles
  G/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
  Chr6:52180788 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGCTGCAGT AATTGGGAGG
  AAGTAAAGAG AAAGGCAGGG AAAAGGGAGC CGCAGGGAGA GGCTCTGCGG GCTGGAGAGA
  GGCGAGACTA GGAGAGAGAC GGGAGAGAGG CTGCAGAGAA CAGAGAGTGA CCAAGACCCG
  CGCCCCCACG GACGCGTGGA TCAGAAAACG GCTGGCTTTA CCGTGACTAA TGTGCAGCTT
  K
  CGCATCCAGG GGTAGATCTG GGGCTGAGCG GGCGGCGCCG GGCTCGGCTC GCTCTGGGCG
  CCCGCCTGCT CGCTGCTGGC AGGGGCGTCC TCCTCGGCTG CGGACGCCGT GCCAACCCCC
  TCTCTGCTGC TGATGTGGGT GCTGCCGGCG TTGGCCGAGG CGCCGCTGGA GTTGCCCAGG
  GAGTTTTTCC CGCCGTGGTG                                            
  
  K = G/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
ss368308677	MGP_WTSI_6_52153807	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	T	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	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
rs262154940					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	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
ss368308677	MGP_WTSI_6_52153807	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52180788 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17423	CpG island 17423	within coordinates
Cpgi17424	CpG island 17424	1836 bp proximal
Gm28308	predicted gene 28308	within coordinates
Hoxa3	homeobox A3	within coordinates
Hoxa5	homeobox A5	within coordinates
Hoxaas3	Hoxa cluster antisense RNA 3	within coordinates
Rr630365	regulatory region 630365	729 bp proximal
Rr630366	regulatory region 630366	769 bp proximal
Rr630367	regulatory region 630367	846 bp proximal
Tssr60991	transcription start site region 60991	431 bp downstream
Tssr60992	transcription start site region 60992	443 bp downstream
Tssr60993	transcription start site region 60993	507 bp downstream
Tssr60994	transcription start site region 60994	579 bp downstream
Tssr60995	transcription start site region 60995	607 bp downstream