rs258307404 SNP Detail

Summary

• ID
  rs258307404
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr12:8973533 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGAAAGCTT GAATGTGGTT
  TGGTATGCTT GCGATGAGGT TATTTTCACG TTTTCAGTAC TTCTGTACTC AGAGAGTCAC
  CCTACTGCTT CTGTAGAATT AATTCCATCA CATTTTCTTT AAGAAACTGC CTCCTGCATA
  CATTACCTGA GCTGTAGTTC TGGACCTGGA CTAGTTACTG ACAATCAGTT GGGTTGTATA
  K
  CTCACTTTCT GTTGCTTTCC TTTTTGTTAA GAGTATGGGT TTTTCATTTC TTTGTCCTTC
  ACCATCTTCC ATTCTCTTAA ATGATTAATT CTTGTCTTCC CCATCGTCCT CTTACCTCCC
  TGCTTTCTCC CAGAAAATGA CCTTCATTGA ACTTAGCAAA GCAAATAGGA TTGGCACCTG
  GGATTCTTGC CTGAAAACTT                                            
  
  K = G/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
ss385082925	MGP_WTSI_12_8930339	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	T	G	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
rs258307404					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	T	G	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
ss385082925	MGP_WTSI_12_8930339	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:8973533 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4400	CpG island 4400	953 bp distal
Gm60663	predicted gene, 60663	1674 bp upstream
Laptm4a	lysosomal-associated protein transmembrane 4A	Intron
Rr403227	regulatory region 403227	1427 bp downstream
Rr462715	regulatory region 462715	1925 bp distal
Rr462716	regulatory region 462716	1685 bp distal
Rr462717	regulatory region 462717	1766 bp distal
Rr462718	regulatory region 462718	1184 bp distal
Rr462719	regulatory region 462719	909 bp distal
Rr462720	regulatory region 462720	33 bp distal
Tssr112751	transcription start site region 112751	1862 bp downstream
Tssr112752	transcription start site region 112752	1829 bp downstream
Tssr112753	transcription start site region 112753	1823 bp downstream
Tssr112754	transcription start site region 112754	1505 bp downstream
Tssr112755	transcription start site region 112755	1479 bp downstream
Tssr112756	transcription start site region 112756	1416 bp downstream
Tssr115725	transcription start site region 115725	1660 bp upstream