rs52185798 SNP Detail

Summary

• ID
  rs52185798
• 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
  Chr3:54601671 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGACTACTC TTCCAGACAT
  CCTGAGTTCA AATCCCAGCA ACCACATGGT GGCTCACAAC CACCCATAAT GAGATCTGAT
  GCCCTCTTCT GGTGTGTCTG AAGACAGCTA CAGTATACTT ATATATAATA AATAAATAAA
  TAAATAAAAT CTTTTAAAAA AACCTACAGC TACAGTGTAC TTATAATAAA TAAATAATAA
  R
  TAAATAAATA AAATCTTTTT AAAAAACCTA ATACTATCAG ATAATATTTC TTTAGCCTGT
  ACTGGCTTAA GGAGGTCCTT CCCTCCGAAA AAGTTTTGTA TAGGAAATCT GGTTTTCTGT
  CACTAGAATT TGTACTTTAA CAGAGTTGTG TAGTTTCTGT GGCAGTAAGT GCAAATTGAT
  AGGTGAAAAA TTGTAAAACA                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	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	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	ST/bJ	SWR/J	ZALENDE/EiJ
ss358013674	MGP_WTSI_3_54498172	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	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	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	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	ST/bJ	SWR/J	ZALENDE/EiJ
rs52185798					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	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
ss358013674	MGP_WTSI_3_54498172	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:54601671 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13172	CpG island 13172	1063 bp distal
Gm65558	predicted gene, 65558	1589 bp upstream
Rr397672	regulatory region 397672	1388 bp downstream
Rr576829	regulatory region 576829	1628 bp distal
Rr576830	regulatory region 576830	1135 bp distal
Rr576831	regulatory region 576831	675 bp distal
Rr576832	regulatory region 576832	104 bp distal
Supt20	SPT20 SAGA complex component	within coordinates
Tssr29131	transcription start site region 29131	1450 bp downstream
Tssr29132	transcription start site region 29132	1414 bp downstream
Tssr29133	transcription start site region 29133	1382 bp downstream
Tssr29134	transcription start site region 29134	1358 bp downstream
Tssr29135	transcription start site region 29135	1195 bp downstream
Tssr29136	transcription start site region 29136	1171 bp downstream
Tssr29137	transcription start site region 29137	1149 bp downstream