rs220096446 SNP Detail

Summary

• ID
  rs220096446
• Variation Type
  SNP
• Alleles
  C/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
  Chr2:109749253 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTTGGCCAC GGATGAGGGC
  GCCTAGAACT TGGCCTGCGT TTGCCGACCA GGCACGTTCC ATGGGGAAGC ACCTGAATAC
  CCCCAGGGTT CCCGCAGGCG GAGTGAAGAA ACACCTGTAC CTAAGAAGGG GAATCGCTTT
  CCAGTTTGGC CCCGTCCTGC CTGTGCAGTG TGACACCTTA GCTCAGATCC ACTCGGGACT
  Y
  ATTACCACGA GCAGAGCCCA GGGAGGAGGA GAAGGATTCG GCCTACCCTG GGCGGGGATC
  CTTAGTGAAT AAGGCATTTA AAAGAAGGAA TGCTGACCTG AGGTAGAGAA TGTTGGGAGA
  GAAAGTTCTA GAGCATGTGA TCAGTGCAGT CTGTAAGGTG GGCAACCGTT TTCCGCCTGT
  ACCTTCAGCA GAGCCTTTCG                                            
  
  Y = C/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
ss355230975	MGP_WTSI_2_109759065	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs220096446					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C

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
ss355230975	MGP_WTSI_2_109759065	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:109749253 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12039	CpG island 12039	47 bp distal
Lgr4	leucine-rich repeat-containing G protein-coupled receptor 4	Intron
Rr397176	regulatory region 397176	1249 bp downstream
Rr562509	regulatory region 562509	1251 bp distal
Rr562510	regulatory region 562510	within coordinates
Rr562511	regulatory region 562511	1124 bp distal
Rr562512	regulatory region 562512	1085 bp distal
Rr562513	regulatory region 562513	697 bp distal
Rr562514	regulatory region 562514	1113 bp proximal
Tssr19307	transcription start site region 19307	1316 bp downstream
Tssr19308	transcription start site region 19308	1270 bp downstream
Tssr19309	transcription start site region 19309	1252 bp downstream
Tssr19310	transcription start site region 19310	1222 bp downstream
Tssr19311	transcription start site region 19311	1172 bp downstream