rs230074789 SNP Detail

Summary

• ID
  rs230074789
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:133943977 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTTTTAATT CCACACCAAC
  CTCTAGGCTT CAGAAGAAGC CAGAGAAAGG TACTCTGGCA AAGAAAAAAA TAAATAGGGA
  AACAAAGAAA CTGTTTTTTT AAGGTGAATA TACATTTTAT ATTTTTGCTT TAATTCTTAG
  AAGGATATGA TATAGCTCTC ACCCTTAATA AACAAGCAGA ACCCCTCTTC CTAATGCTTA
  W
  TGATGGCCTG TAAGCAGAGA GAGAAATGCA AATACCCAGT TAGCATTAAA CTTTCCTCTT
  AAAAAATAGC AAAGGGGGGA AAAAAACATC TTAACAGTTC TTTGGATAAA AAAACACCTG
  AAGGAATCTC CCTTCTCTTT ATGCAAAAAT CAGTGTTGGT GAATGATTTA AAAAAAAAAA
  AAAAACTCCC TTGCTTTCCT                                            
  
  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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359806308	MGP_WTSI_3_133901180	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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs230074789					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	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
ss359806308	MGP_WTSI_3_133901180	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:133943977 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13850	CpG island 13850			1577 bp distal
Cpgi13851	CpG island 13851			989 bp proximal
Cxxc4	CXXC finger 4			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr585624	regulatory region 585624			1715 bp distal
Rr585625	regulatory region 585625			337 bp distal
Rr585626	regulatory region 585626			1958 bp proximal
Tssr31786	transcription start site region 31786			1843 bp downstream
Tssr31787	transcription start site region 31787			1716 bp downstream
Tssr31788	transcription start site region 31788			1674 bp downstream
Tssr31789	transcription start site region 31789			1622 bp downstream
Tssr31790	transcription start site region 31790			1038 bp upstream
Tssr31791	transcription start site region 31791			1070 bp upstream