rs249116941 SNP Detail

Summary

• ID
  rs249116941
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr6:52223818 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACCCCTTCT CCTCGCTGCC
  TGTAGGGGTT CGGAGTGACT CCTCAGAGCC AGAGGCACTT CTGCTCACCG GTCCGCAAGC
  TGCCTGGTCT GCTGAAGCTG ACGAATCGGG AAACCATGCA ATTGAGGCGA ACCTTGGGCT
  GTTTTAGAGG CGCTGAGGAG CCTTCTCCTG GGTATGCTGC ACCTTGGGGT GGGGGTGGGG
  R
  GGGGCACCAG GCTGCTTGCA GGGCTTCAGA GCTGTGAGGG AAAAGGAGGG TGGCAAAGAG
  GGAGTACTGG CCCAAGGAGT CCTGGCTAAG AAAAGAGTCT CTTCTTTCTT GCAAAACCTA
  AGAGTGAAAG CAAAGGATAT TCAAGGCAGA AATTGAGACA GCTCCCATCA TTCTTGTTCT
  TTAGCCCACA GGAGAAGCAC                                            
  
  R = A/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	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	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
ss368309175	MGP_WTSI_6_52196837	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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	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
rs249116941					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss368309175	MGP_WTSI_6_52196837	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52223818 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17436	CpG island 17436	66 bp distal
Gm56036	predicted gene, 56036	734 bp downstream
Gm56037	predicted gene, 56037	253 bp downstream
Gm56038	predicted gene, 56038	30 bp downstream
Gm56039	predicted gene, 56039	583 bp upstream
Gm56040	predicted gene, 56040	1494 bp upstream
Hoxa11	homeobox A11	1034 bp upstream
Hoxa11os	homeobox A11, opposite strand	within coordinates
Rr146302	regulatory region 146302	within coordinates
Tssr1847	transcription start site region 1847	907 bp downstream
Tssr56517	transcription start site region 56517	1824 bp downstream
Tssr56518	transcription start site region 56518	1799 bp downstream
Tssr56519	transcription start site region 56519	851 bp downstream
Tssr56520	transcription start site region 56520	826 bp downstream
Tssr61029	transcription start site region 61029	1075 bp upstream
Tssr61030	transcription start site region 61030	1045 bp upstream
Tssr61031	transcription start site region 61031	1012 bp upstream