rs249117822 SNP Detail

Summary

• ID
  rs249117822
• 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
  Chr1:40125401 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCCTACGAC ACGCATTGCT
  TGGCCCACGC AGATTTTTTT TTTTTTTTTT TCAGATTCAG TAGATGTGGG TGTGTGCCCA
  AGGACTCGAT CACACGCTGG AACTGCTTGT ATGGGAAGAG CCCTTTTGGA GGACTATTTT
  CTTAGGAGAT TAGATGAGGC TCATGCTCAT TAGAGAGCCC AGGACGGAGG GAGTTATCTG
  K
  GGACAAGGAA CTTGTGAGAT CATTGCTTCT TGCATCTCCC GGGAGTCTTG TAAACACGCA
  GGTGACTTTT ATTCCTGAGA GTTGATGTCT GGGCATCTGC TTTCTTCTCA CGTGTTGATC
  ATGTTGTGAG CAACCAAGCT TTCAAGAGTC AGGAAAGAGA CCTTCCTTGG GAGTGAGGAA
  TGAGTAAATG TATAGCATTG                                            
  
  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
ss349341447	MGP_WTSI_1_40143086	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	G	T	T	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	G	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
rs249117822					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	G	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
ss349341447	MGP_WTSI_1_40143086	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40125401 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	177 bp distal
Gm16894	predicted gene, 16894	390 bp upstream
Il1r2	interleukin 1 receptor, type II	within coordinates
Rr26842	regulatory region 26842	1166 bp proximal
Rr29353	regulatory region 29353	within coordinates
Rr396010	regulatory region 396010	205 bp downstream
Tssr62	transcription start site region 62	1524 bp downstream
Tssr6411	transcription start site region 6411	1492 bp downstream
Tssr6412	transcription start site region 6412	1471 bp downstream
Tssr6413	transcription start site region 6413	1457 bp downstream
Tssr6414	transcription start site region 6414	1013 bp downstream
Tssr6415	transcription start site region 6415	147 bp downstream
Tssr11414	transcription start site region 11414	379 bp upstream