rs239246709 SNP Detail

Summary

• ID
  rs239246709
• 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
  Chr1:13444819 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATGGGTGAC TGGAAGTGAA
  GGGAGAGTCA ACAGAGGACT CCATGCGAGG GCAAAGGGCA ATGCCCAAAA GAAAGCTAAA
  AAGGGGGACT GGCCCGGGCC TGGGGGTGGA GGCCAAGGGA CTGCCGCGCC TCCGACGGCA
  GGGACGCTGC GGCGAGAAGG TCGCGGAAAA CCTAGTCCCA GAGGTGCCTC CCGCGCGCGC
  W
  CAGGCAGGGC CCGGTAGCCG GCAGCCTGCA CCCCTCGGGC GCACCTCTGC ACCCAGACGC
  TGTTCCGGGG CGCACTCCTT GGCCACCATG TCCCCTCGGT TTTTTCGTGG ATACGCCTCC
  CCAATTGCTG TCCCTGAGGT CTCTGGAGGG GATAGAGGGG CGTGACCGCG GGAGGCGAAC
  TTACCGGGGT ACCACCCCGG                                            
  
  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
ss348676321	MGP_WTSI_1_13364676	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
rs239246709					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
ss348676321	MGP_WTSI_1_13364676	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:13444819 () rs orientation: forward

Symbol	Name	Function Class
Cpgi41	CpG island 41	within coordinates
Gm29570	predicted gene 29570	within coordinates
Gm51852	predicted gene, 51852	1607 bp downstream
Gm70663	predicted gene, 70663	within coordinates
Ncoa2	nuclear receptor coactivator 2	512 bp upstream
Rr395968	regulatory region 395968	1887 bp downstream
Rr407895	regulatory region 407895	523 bp distal
Rr407896	regulatory region 407896	902 bp distal
Rr407897	regulatory region 407897	22 bp distal
Rr407898	regulatory region 407898	315 bp distal
Rr407899	regulatory region 407899	112 bp proximal
Tssr5965	transcription start site region 5965	1677 bp downstream
Tssr10990	transcription start site region 10990	931 bp upstream
Tssr10991	transcription start site region 10991	704 bp upstream
Tssr10992	transcription start site region 10992	526 bp upstream
Tssr10993	transcription start site region 10993	520 bp upstream
Tssr10994	transcription start site region 10994	413 bp upstream
Tssr10995	transcription start site region 10995	332 bp upstream
Tssr10996	transcription start site region 10996	184 bp upstream
Tssr10997	transcription start site region 10997	120 bp upstream