rs253920299 SNP Detail

Summary

• ID
  rs253920299
• 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
  Chr17:48046807 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAAACGGAG ACAGGATATA
  TCGTGAAAAC GGTGGGCTCT TGAGCAAGGG GTTTTACATC TCACACCTGC CGGATGAAAC
  CAAAAATCAT GCTCCGAGCA CAGTGGCCGT TTCCCACCAA GCAGGCAAAC TTGCAGAGGG
  CATTCATTCC ATCAGGAGTG TCTGAATAAC AAAACAAGTC AGGAGCAGCG GCACACACCT
  Y
  CGACTCCAGC CTTCTCGGAA AGCAGAGGCA GGCAGAGCTC CGTCAGATTG AGGGCACTAT
  AATCAACTAA TGAATTCTAG GCCACCTAGG GTTATTGGGT GAGTCTGTCT CCACGAAACA
  AAGCAATGGT AGAAATAACA ATAAACCAGG TTTTAAGGCC AAGCACGTGA ACCCTGGAGT
  GTGGCTTCAG TGCTCTCGCA                                            
  
  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
ss398353085	MGP_WTSI_17_47872831	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	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
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
rs253920299					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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

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
ss398353085	MGP_WTSI_17_47872831	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:48046807 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9270	CpG island 9270	1005 bp proximal
Pgc	progastricsin (pepsinogen C)	1404 bp downstream
Rr405329	regulatory region 405329	933 bp upstream
Rr528107	regulatory region 528107	658 bp proximal
Rr528108	regulatory region 528108	1106 bp proximal
Rr528109	regulatory region 528109	1140 bp proximal
Rr528110	regulatory region 528110	1556 bp proximal
Tfeb	transcription factor EB	1155 bp upstream
Tssr145039	transcription start site region 145039	1681 bp downstream
Tssr145040	transcription start site region 145040	1647 bp downstream
Tssr145041	transcription start site region 145041	1635 bp downstream
Tssr145042	transcription start site region 145042	1584 bp downstream
Tssr145043	transcription start site region 145043	1558 bp downstream
Tssr145044	transcription start site region 145044	1545 bp downstream
Tssr145045	transcription start site region 145045	1528 bp downstream
Tssr145046	transcription start site region 145046	1477 bp downstream
Tssr145047	transcription start site region 145047	1461 bp downstream
Tssr145048	transcription start site region 145048	1441 bp downstream
Tssr145049	transcription start site region 145049	1154 bp upstream
Tssr145050	transcription start site region 145050	1243 bp upstream
Tssr145051	transcription start site region 145051	1292 bp upstream
Tssr148480	transcription start site region 148480	1554 bp upstream
Tssr148481	transcription start site region 148481	1518 bp upstream
Tssr148482	transcription start site region 148482	1401 bp upstream
Tssr148483	transcription start site region 148483	1895 bp downstream