rs52647841 SNP Detail

Summary

• ID
  rs52647841
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr18:69726285 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGAGTGGAAA TTTTAGAGAA
  GAAAAGGGGT GCCTAAAACA AAAAACAAAA AAAAAAAAAA AAAAAGAGGG AGAGAAAGAG
  AGACACACAG AGGGACAGAG AGAGAGAGAG GGAGAGAGAG AGAGAGAGAG AGAGAGAGAG
  AGAGAGAGAG AGAGAGAGAG AGAGCGCAGA AGGGAAGCCT GCAGGAATTT GTAAGAATCG
  R
  CATTATTCGA GGAACTGAAC TGATAAAAAC CCCTCGGAAA AGTTGCAGCG ATCTCGAGTG
  CTCGGCTGCG GCGCTGCACA GGCCGGGCCG CCATCCAGCC TGCGCGAACT TGAGCGTCTG
  ACAGCAGCGC CGGGGCCTCC CCCGCCCGCC AGGAATGGTC TCTTCCTGCT TTGCATATTC
  ACCACGCTTG GCCCGGCCAT                                            
  
  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	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
ss401094994	MGP_WTSI_18_69752868	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	A	A	A	A	G	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A
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
rs52647841					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	A	A	A	A	G	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A

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
ss401094994	MGP_WTSI_18_69752868	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr18:69726285 () rs orientation: forward

Symbol	Name	Function Class
Cpgi10192	CpG island 10192	396 bp distal
Cpgi10193	CpG island 10193	4 bp proximal
Rr405727	regulatory region 405727	53 bp upstream
Tcf4	transcription factor 4	within coordinates
Tssr151833	transcription start site region 151833	365 bp downstream
Tssr151834	transcription start site region 151834	261 bp downstream
Tssr151835	transcription start site region 151835	243 bp downstream
Tssr151836	transcription start site region 151836	203 bp downstream
Tssr151837	transcription start site region 151837	within coordinates
Tssr151838	transcription start site region 151838	44 bp upstream
Tssr151839	transcription start site region 151839	147 bp upstream
Tssr151840	transcription start site region 151840	240 bp upstream
Tssr151841	transcription start site region 151841	277 bp upstream
Tssr151842	transcription start site region 151842	300 bp upstream
Tssr151843	transcription start site region 151843	332 bp upstream
Tssr151844	transcription start site region 151844	369 bp upstream
Tssr151845	transcription start site region 151845	410 bp upstream
Tssr153821	transcription start site region 153821	78 bp downstream