rs108016682 SNP Detail

Summary

• ID
  rs108016682
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  132
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:48046795 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGTACCACA TTCCAAACGG
  AGACAGGATA TATCGTGAAA ACGGTGGGCT CTTGAGCAAG GGGTTTTACA TCTCACACCT
  GCCGGATGAA ACCAAAAATC ATGCTCCGAG CACAGTGGCC GTTTCCCACC AAGCAGGCAA
  ACTTGCAGAG GGCATTCATT CCATCAGGAG TGTCTGAATA ACAAAACAAG TCAGGAGCAG
  Y
  GGCACACACC TCCGACTCCA GCCTTCTCGG AAAGCAGAGG CAGGCAGAGC TCCGTCAGAT
  TGAGGGCACT ATAATCAACT AATGAATTCT AGGCCACCTA GGGTTATTGG GTGAGTCTGT
  CTCCACGAAA CAAAGCAATG GTAGAAATAA CAATAAACCA GGTTTTAAGG CCAAGCACGT
  GAACCCTGGA GTGTGGCTTC                                            
  
  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
ss398353083	MGP_WTSI_17_47872819	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
rs108016682					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
ss398353083	MGP_WTSI_17_47872819	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:48046795 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9270	CpG island 9270	1017 bp proximal
Pgc	progastricsin (pepsinogen C)	1392 bp downstream
Rr405329	regulatory region 405329	945 bp upstream
Rr528107	regulatory region 528107	670 bp proximal
Rr528108	regulatory region 528108	1118 bp proximal
Rr528109	regulatory region 528109	1152 bp proximal
Rr528110	regulatory region 528110	1568 bp proximal
Tfeb	transcription factor EB	1167 bp upstream
Tssr145039	transcription start site region 145039	1669 bp downstream
Tssr145040	transcription start site region 145040	1635 bp downstream
Tssr145041	transcription start site region 145041	1623 bp downstream
Tssr145042	transcription start site region 145042	1572 bp downstream
Tssr145043	transcription start site region 145043	1546 bp downstream
Tssr145044	transcription start site region 145044	1533 bp downstream
Tssr145045	transcription start site region 145045	1516 bp downstream
Tssr145046	transcription start site region 145046	1465 bp downstream
Tssr145047	transcription start site region 145047	1449 bp downstream
Tssr145048	transcription start site region 145048	1429 bp downstream
Tssr145049	transcription start site region 145049	1166 bp upstream
Tssr145050	transcription start site region 145050	1255 bp upstream
Tssr145051	transcription start site region 145051	1304 bp upstream
Tssr148480	transcription start site region 148480	1542 bp upstream
Tssr148481	transcription start site region 148481	1506 bp upstream
Tssr148482	transcription start site region 148482	1389 bp upstream
Tssr148483	transcription start site region 148483	1907 bp downstream