rs261184504 SNP Detail

Summary

• ID
  rs261184504
• 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
  Chr1:30987412 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACTAGGAGGT ACCACAAGCA
  AGACAACTTA TTCCCGACAC GTGCCCTCAC AAAGTACATC TATTCAGTGC GTTAAAAAAC
  CCAGTGTAAA TTACCAGTAA AGATTAATAC TTCAGAGAGC AGACTCCCTC CAATAATCTC
  AAAAATATTA TTTATTTATA TATATACATA TATATATAAA TACATACATA TGTATATATA
  Y
  TGCATATATA AAAATCTTTT GCCCGTGTAT ATAAAATGGT CCTAAATTTT TTTCTTCCTT
  GTTTTTGTTA ATTTGGCACT TTATTGAACA TTCATACACA GGTCCGATAT AGCTTTTAAA
  GAGTTCCATT AGGAAGCTGG AGGGCAGCAA GAAAAAAATT TTCCTGAACT GCTTTGAAAT
  GAGTGGAGCC ACCCAGTGGC                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss349112153	MGP_WTSI_1_31005176	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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	C	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs261184504					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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	C	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
ss349112153	MGP_WTSI_1_31005176	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:30987412 () rs orientation: forward

Symbol	Name	Function Class
Cpgi100	CpG island 100	457 bp proximal
Gm53209	predicted gene, 53209	1540 bp upstream
Ptp4a1	protein tyrosine phosphatase 4a1	within coordinates
Rr408767	regulatory region 408767	within coordinates
Rr408768	regulatory region 408768	968 bp proximal
Rr408769	regulatory region 408769	1066 bp proximal
Rr408770	regulatory region 408770	1769 bp proximal
Tssr6137	transcription start site region 6137	1533 bp upstream
Tssr6138	transcription start site region 6138	1558 bp upstream
Tssr6139	transcription start site region 6139	1924 bp upstream
Tssr11170	transcription start site region 11170	344 bp downstream
Tssr11171	transcription start site region 11171	759 bp downstream
Tssr11172	transcription start site region 11172	966 bp downstream
Tssr11173	transcription start site region 11173	1425 bp downstream
Tssr11174	transcription start site region 11174	1546 bp downstream
Tssr11175	transcription start site region 11175	1573 bp downstream
Tssr11176	transcription start site region 11176	1686 bp downstream
Tssr11177	transcription start site region 11177	1756 bp downstream
Tssr11178	transcription start site region 11178	1810 bp downstream