rs249396393 SNP Detail

Summary

• ID
  rs249396393
• 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
  

Genome Location and Flanking Sequence

• Location
  ChrX:72533191 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTCCTTCCA CTTTTGCCTC
  TAGCAGTTGA GTTCGGAAGG CTTATTTATC CCAGATGGAG CACCAAATAC CCCAATTTCA
  CCACCACCAT GTGCTCTATA AGAGGACTCT TTGAGCTGGG GGTGCTTTAA GCCTTTTGGA
  GGCTAGACTT CCTATTTACC CCTACACCAG GGCAACCCCA GACATCCATC CCTGGGAGGC
  Y
  ATCAAGACCA CCATGGATTC CCTATTTAGC AAATGAGGTG AAGTGACTAA AATACCCTGA
  GCCTTTGCCA TGGAGTTGGA CAAAGAGGAG TGGTAAAAGA AGCAAGGGCT CTGGCCTTGT
  CCTGCAGACT ACACACTGCT TGGGTGGTGG AATGCAGGAG AAAGAAACAG GAGATGTGGG
  TGCTGGGGCA GGCTCGGGCA                                            
  
  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
ss403771532	MGP_WTSI_X_70734924	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	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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
rs249396393					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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
ss403771532	MGP_WTSI_X_70734924	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: ChrX:72533191 () rs orientation: forward

Symbol	Name	Function Class
Bgn	biglycan	within coordinates
Rr4564	regulatory region 4564	1210 bp proximal
Rr7746	regulatory region 7746	1258 bp proximal
Tssr161208	transcription start site region 161208	1178 bp upstream
Tssr161209	transcription start site region 161209	1212 bp upstream
Tssr161210	transcription start site region 161210	1235 bp upstream
Tssr161211	transcription start site region 161211	1264 bp upstream
Tssr161212	transcription start site region 161212	1319 bp upstream
Tssr161213	transcription start site region 161213	1386 bp upstream
Tssr161214	transcription start site region 161214	1729 bp upstream
Tssr163544	transcription start site region 163544	1817 bp downstream