rs259170309 SNP Detail

Summary

• ID
  rs259170309
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:137849672 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGGCCTGGG AAGTAGTTGC
  CGGTTTGCGG AGGAAGTGGC GTCAGGTGTG CGTTTTCCAC GCCCCTCGCC ACTCACGTGC
  CGTCTTCCAG AGTCGTGATT GGTCAGCTGC GGTTCGTTCG CGGGCGCAGG GCCCCGCTCG
  GGGCGTGCGC GCGCCCGGTT GTCGCCGCGG TGTGCGCTCC GGGTTTCTGT TGTTTAGGAG
  R
  GTCCCTACCG GAAGTGTGGC AGAAAGGAGC CATGTGGAGT CTCAGGGTAG CTTGTCGCAA
  CGCTGCGTTG CGCCTAGAGG GCAGGCGAGC CGTTTTCCCT TCTTTTCCTC TTTTTCCTTC
  CCTGGGTCAG GCCGTCGCAT GTAAGGGCGC CGAGGGGCAG TTGCTGCCCA GGCGGCTCGG
  CCTCGTGGTC AGCTGAGGAT                                            
  
  R = A/G
  

  
  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	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	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	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359902685	MGP_WTSI_3_137806875	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	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	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs259170309					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A

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
ss359902685	MGP_WTSI_3_137806875	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:137849672 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
C230076A16Rik	RIKEN cDNA C230076A16 gene			within coordinates
Cpgi13871	CpG island 13871			within coordinates
Mttp	microsomal triglyceride transfer protein			493 bp upstream
Rr375797	regulatory region 375797			within coordinates
Rr398069	regulatory region 398069			1018 bp upstream
Rr586084	regulatory region 586084			534 bp distal
Rr586085	regulatory region 586085			384 bp distal
Rr586086	regulatory region 586086			504 bp distal
Rr586087	regulatory region 586087			within coordinates
Rr586088	regulatory region 586088			1184 bp proximal
Trmt10a	tRNA methyltransferase 10A			Intron
				mRNA-UTR
Tssr31944	transcription start site region 31944			434 bp downstream
Tssr31945	transcription start site region 31945			415 bp downstream
Tssr31946	transcription start site region 31946			68 bp downstream
Tssr31947	transcription start site region 31947			25 bp downstream
Tssr31948	transcription start site region 31948			within coordinates
Tssr31949	transcription start site region 31949			11 bp upstream
Tssr35880	transcription start site region 35880			515 bp upstream
Tssr35881	transcription start site region 35881			198 bp upstream
Tssr35882	transcription start site region 35882			179 bp upstream