rs52087404 SNP Detail

Summary

• ID
  rs52087404
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:23593305 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CACCC CCCAACCCCA GGAATTCACT
  Y
  TGTAACCACG GGAGGGAGAA GAGTT                                      
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CZECHII/EiJ	DBA/2J	I/LnJ	JF1/MsJ	KK/HlJ	LP/J	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	RF/J	SEA/GnJ	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss640720663	FVB_NJ_5_22894125	EVA_MGPV3	EVA_MGPV3	f	SNP	C	T	C	T	T	T	C	C	C	C	C	C	C	T	C	C	C	T	C	C	T	T	C	T	C	T	T	C	T	T	C	T	T	T
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CZECHII/EiJ	DBA/2J	I/LnJ	JF1/MsJ	KK/HlJ	LP/J	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	RF/J	SEA/GnJ	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs52087404					SNP	C	T	C	T	T	T	C	C	C	C	C	C	C	T	C	C	C	T	C	C	T	T	C	T	C	T	T	C	T	T	C	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
ss640720663	FVB_NJ_5_22894125	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:23593305 () rs orientation: forward

Symbol	Name	Function Class
4930580E04Rik	RIKEN cDNA 4930580E04 gene	within coordinates
5031425E22Rik	RIKEN cDNA 5031425E22 gene	within coordinates
Cpgi15578	CpG island 15578	1094 bp distal
D5Jcs54	DNA segment, Chr 5, John C. Schimenti 54	1226 bp proximal
Gm43058	predicted gene 43058	63 bp upstream
Rr112207	regulatory region 112207	within coordinates
Rr124896	regulatory region 124896	904 bp distal
Rr367795	regulatory region 367795	972 bp downstream
Tssr45359	transcription start site region 45359	1038 bp downstream
Tssr45360	transcription start site region 45360	1010 bp downstream
Tssr45361	transcription start site region 45361	990 bp downstream
Tssr50259	transcription start site region 50259	1808 bp upstream
Tssr50260	transcription start site region 50260	1383 bp upstream
Tssr50261	transcription start site region 50261	1291 bp upstream
Tssr50262	transcription start site region 50262	1246 bp upstream