rs239544869 SNP Detail

Summary

• ID
  rs239544869
• 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
  Chr1:86286695 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGGGTCGCGC GACACGTGCG
  GGGCTCCGCA GAGCACGTGG CGGGCCGCGC ACCAGAGCAC GTGCGCGGGG AGGCGGGGCC
  CCGGGACCGC TCGCCGCCTA AGGTTGGCCC TCTCTTCCCA CGCCGTGCCC CTATCCGCTC
  TCAGCTCCTC CGATCTCTCC TCACACCGTC CCCTCCCGCC CGCTACATCC GAACCCTCGA
  Y
  ATCGCCCTCC CGGAAACCTG CCTCCGCTCT TCTCATCCCC CTAAGTCAGA GGGCAAGCAC
  CGCGAGACCT CCCGCTAGTC GCGCGAGACT TTCCCCCCCA GCATGGCGCC CTCGAACGCG
  CCCGGGATTG CGCGCAAGCC CTCCTCCCCT CCGCGACGGA CGGGCGGGCG CGCGCGCGTC
  CCTCCGAAAG CAGGGGCCTA                                            
  
  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/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	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
ss350367761	MGP_WTSI_1_88255548	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	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/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	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
rs239544869					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	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
ss350367761	MGP_WTSI_1_88255548	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:86286695 () rs orientation: forward

Symbol	Name	Function Class
C130036L24Rik	RIKEN cDNA C130036L24 gene	611 bp upstream
Cpgi503	CpG island 503	within coordinates
D1Mit516	DNA Segment, Chr 1, Massachusetts Institute of Technology-516	865 bp distal
Gm71192	predicted gene, 71192	679 bp downstream
Ncl	nucleolin	within coordinates
Rr29752	regulatory region 29752	within coordinates
Rr396146	regulatory region 396146	342 bp upstream
Tssr142	transcription start site region 142	1942 bp downstream
Tssr7746	transcription start site region 7746	1912 bp downstream
Tssr7747	transcription start site region 7747	1860 bp downstream
Tssr7748	transcription start site region 7748	1679 bp downstream
Tssr7749	transcription start site region 7749	580 bp upstream
Tssr7750	transcription start site region 7750	665 bp upstream
Tssr12777	transcription start site region 12777	1901 bp upstream
Tssr12778	transcription start site region 12778	1824 bp upstream
Tssr12779	transcription start site region 12779	1805 bp upstream
Tssr12780	transcription start site region 12780	1752 bp upstream
Tssr12781	transcription start site region 12781	1704 bp upstream
Tssr12782	transcription start site region 12782	1629 bp upstream
Tssr12783	transcription start site region 12783	1595 bp upstream
Tssr12784	transcription start site region 12784	1568 bp upstream
Tssr12785	transcription start site region 12785	1539 bp upstream
Tssr12786	transcription start site region 12786	741 bp upstream
Tssr12787	transcription start site region 12787	492 bp upstream
Tssr12788	transcription start site region 12788	within coordinates
Tssr12789	transcription start site region 12789	45 bp downstream
Tssr12790	transcription start site region 12790	385 bp downstream
Tssr12791	transcription start site region 12791	508 bp downstream
Tssr12792	transcription start site region 12792	978 bp downstream