rs246686593 SNP Detail

Summary

• ID
  rs246686593
• 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
  Chr1:30989497 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTGGAACCC AGGAAATGTC
  CCTATTTTTT TTTTTTTTTT TCTTTCGAGG CACGTGAAGC CTAGTTGCTT CCTAGCCTTT
  CTTCTTCTCC CCCCACCCCC TTTCTTTTTA GGTTACACCC CTAAACTGCT GATTCTGGCA
  ACTGCAGTTG GCTCGTTTGT GGCATTTCGA AATCACATGC ATCCTTTGTA CTGCTGCTCA
  Y
  TCTCAGATAA TGAAAGGTTA GCTTTTGCTA AGGGGAAGCT TTTTTTTTTT CTTTTTCTTT
  TTAAATTAAG AATCTTCGGC TTTATCAAGG GCTGATGTAA GTTTTTGCGT CAAAAGCTAA
  GCTTTCCCCT TTTGTTGATC TTCAGTCCTG TTCCAGTGTC CTTTTAATCT AGGCTTCTAA
  GTGAAGCCTG AGTGCAGCTG                                            
  
  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
ss349112178	MGP_WTSI_1_31007261	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	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs246686593					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	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
ss349112178	MGP_WTSI_1_31007261	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:30989497 () rs orientation: forward

Symbol	Name	Function Class
Cpgi100	CpG island 100	181 bp distal
Gm53209	predicted gene, 53209	within coordinates
Ptp4a1	protein tyrosine phosphatase 4a1	659 bp upstream
Rr408767	regulatory region 408767	1118 bp distal
Rr408768	regulatory region 408768	317 bp distal
Rr408769	regulatory region 408769	998 bp distal
Rr408770	regulatory region 408770	within coordinates
Tssr6137	transcription start site region 6137	534 bp downstream
Tssr6138	transcription start site region 6138	507 bp downstream
Tssr6139	transcription start site region 6139	152 bp downstream
Tssr11170	transcription start site region 11170	1738 bp upstream
Tssr11171	transcription start site region 11171	1315 bp upstream
Tssr11172	transcription start site region 11172	1079 bp upstream
Tssr11173	transcription start site region 11173	659 bp upstream
Tssr11174	transcription start site region 11174	536 bp upstream
Tssr11175	transcription start site region 11175	490 bp upstream
Tssr11176	transcription start site region 11176	378 bp upstream
Tssr11177	transcription start site region 11177	283 bp upstream
Tssr11178	transcription start site region 11178	262 bp upstream