rs239335339 SNP Detail

Summary

• ID
  rs239335339
• Variation Type
  SNP
• Alleles
  A/C

• 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:154406921 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCATGACC CCACTCACCG
  GATCCCCGAA GCCAACGACG GGATGGCGCG GAGAGCGGTG GTGGTGGTGG CGCTAGCGCC
  AGAAGACTCT GCGCGCCAGC CTGGAACACG AGGACAGAGA ATTCCAGGCT ACACCCAGTC
  CCCTCCTCTC AGTGTACTCC CCCTCCCTCA GCTTGGCCGG CCAAGCGGGC TCACCCCCTT
  M
  CCCTTCCCCT GGCCTCCTCT GGGGAGACTC AGAGATAAAT AAAGAGATGT CCCGGATTTT
  TCAAACAAAA TAAAGTATAA GAGTTCTCCC GTTAGGGGGT AGGGTGGGGG TGTCGGGCAG
  ACCCGCTTTG AGCCAAGTCT CTTCAGACGC GGAAAGACGC AGGCTGAAGA CTGCGTGCGC
  CCCGGCTCTT GCCAGGCTCA                                            
  
  M = A/C
  

  
  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/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	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
ss404942114	MGP_WTSI_X_152058468	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	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	A	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/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	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
rs239335339					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss404942114	MGP_WTSI_X_152058468	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: ChrX:154406921 () rs orientation: forward

Symbol	Name	Function Class
Cpgi23014	CpG island 23014	within coordinates
Cpgi23015	CpG island 23015	669 bp proximal
Gm15156	predicted gene 15156	564 bp downstream
Ptchd1	patched domain containing 1	111 bp upstream
Ptchd1as	Ptchd1 antisense RNA	611 bp upstream
Rr694584	regulatory region 694584	1126 bp distal
Rr694585	regulatory region 694585	110 bp distal
Rr694586	regulatory region 694586	360 bp proximal
Rr694587	regulatory region 694587	861 bp proximal
Tssr162424	transcription start site region 162424	1260 bp downstream
Tssr162425	transcription start site region 162425	1227 bp downstream
Tssr162426	transcription start site region 162426	1114 bp downstream
Tssr164445	transcription start site region 164445	423 bp upstream
Tssr164446	transcription start site region 164446	364 bp upstream
Tssr164447	transcription start site region 164447	104 bp upstream
Tssr164448	transcription start site region 164448	155 bp downstream
Tssr164449	transcription start site region 164449	210 bp downstream