rs236309049 SNP Detail

Summary

• ID
  rs236309049
• Variation Type
  SNP
• Alleles
  A/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:154407677 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTTTTTTCC TCCTCCTTCT
  CCTCCTCCTC TCTCTGTCGT CATTGGCAGG TCTGGGGGAT CTGGTGCGGT GGAGCTGGTG
  CGGGCCCCCC TGCGGGTGTA GACTGGGAAA TGCTGGTCGG GGAGTCAGTA CTTAACCCCC
  TTCTCTCACT CCACCTGCTC CTCCTCCACG CGCGACAGTG TGCGAGTACG GGGACCCTTA
  W
  ATCAGAACAA GAGATGTACT GGTCTCTGAG TATGTCGAGC CGCAGGGGGC GCGGGGGAGC
  CAGAGGGGCT CTGAAGGCTT GGCAAAGTTG GGCTTGTGCG TGTGTGCGCC AGCCATAGCT
  AGCAGGCAGC CACTGTGGTT CCCCCTCGCA CTTCCCCTCG GGAGATTTCC CGAGAAGGCG
  GACGCTGGCT TCGGCCTGGG                                            
  
  W = A/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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss404942120	MGP_WTSI_X_152059224	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T
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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs236309049					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	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
ss404942120	MGP_WTSI_X_152059224	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: ChrX:154407677 () rs orientation: forward

Symbol	Name	Function Class
Cpgi23014	CpG island 23014	510 bp distal
Cpgi23015	CpG island 23015	within coordinates
Gm15156	predicted gene 15156	1320 bp downstream
Ptchd1	patched domain containing 1	867 bp upstream
Ptchd1as	Ptchd1 antisense RNA	within coordinates
Rr694584	regulatory region 694584	1882 bp distal
Rr694585	regulatory region 694585	866 bp distal
Rr694586	regulatory region 694586	within coordinates
Rr694587	regulatory region 694587	105 bp proximal
Tssr162425	transcription start site region 162425	1983 bp downstream
Tssr162426	transcription start site region 162426	1870 bp downstream
Tssr164445	transcription start site region 164445	1179 bp upstream
Tssr164446	transcription start site region 164446	1120 bp upstream
Tssr164447	transcription start site region 164447	860 bp upstream
Tssr164448	transcription start site region 164448	577 bp upstream
Tssr164449	transcription start site region 164449	535 bp upstream