rs259390662 SNP Detail

Summary

• ID
  rs259390662
• 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
  Chr3:127585150 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGTGGTATT TGCAACCAAT
  CAGCCTTGTG CAAAAACAAA GCCCGGTAGT CCTTCACTGG TTTCACAGGA CACAGGGGTC
  AGTTAGGAGC AGCTTGTCCC GCGTGCGCAG CTGGGTTGTC AGTGCTGCGG TGTACCTAAC
  ACACCGACAC AGACCCCTCT TTTTTCTCCC AGGAGAGGAG ACAAGGCTCA GGAGTCCTGA
  W
  CTAGCTGTGG CCACTGGAAG ACTCTCAGGT GAGTGTGTGC ATCTTGGTAT CCAGCACGCA
  AAGGGTTAAG CCTGGAGAGT TGGGGGGGGG GGGGTTGGAG GAATTGTGTG TGTGTGTGTG
  TGTGTGTGTG TGTGTGTGTG TGTGTGTGTA GGGGGGGGTG AAGAGCCATG CCTTTGGCTC
  CTGTCTGTAG CTTTTCATTT                                            
  
  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	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
ss359647263	MGP_WTSI_3_127494419	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	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
rs259390662					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
ss359647263	MGP_WTSI_3_127494419	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:127585150 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13800	CpG island 13800	1373 bp distal
Cpgi13801	CpG island 13801	552 bp distal
Gm56817	predicted gene, 56817	1244 bp upstream
Gm65225	predicted gene, 65225	within coordinates
Rr584860	regulatory region 584860	1579 bp distal
Rr584861	regulatory region 584861	1682 bp distal
Rr584862	regulatory region 584862	1255 bp distal
Rr584863	regulatory region 584863	687 bp distal
Rr584864	regulatory region 584864	within coordinates
Tifa	TRAF-interacting protein with forkhead-associated domain	within coordinates
Tssr31599	transcription start site region 31599	1692 bp downstream
Tssr31600	transcription start site region 31600	1624 bp downstream
Tssr31601	transcription start site region 31601	1572 bp downstream
Tssr31602	transcription start site region 31602	1518 bp downstream
Tssr31603	transcription start site region 31603	1500 bp downstream
Tssr31604	transcription start site region 31604	1376 bp downstream
Tssr31605	transcription start site region 31605	862 bp downstream
Tssr31606	transcription start site region 31606	676 bp downstream
Tssr31607	transcription start site region 31607	452 bp downstream
Tssr31608	transcription start site region 31608	356 bp downstream
Tssr31609	transcription start site region 31609	317 bp downstream
Tssr31610	transcription start site region 31610	224 bp downstream
Tssr31611	transcription start site region 31611	111 bp downstream
Tssr35598	transcription start site region 35598	1743 bp upstream
Tssr35599	transcription start site region 35599	1661 bp upstream
Tssr35600	transcription start site region 35600	1633 bp upstream
Tssr35601	transcription start site region 35601	1600 bp upstream
Tssr35602	transcription start site region 35602	1283 bp upstream