rs249090732 SNP Detail

Summary

• ID
  rs249090732
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:137849603 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTCGGATGC CAAAGGAGCG
  TGAGCTACCC TAGCCTCCGC TGCAACCAAG GCTTCCGGAG TAGAGGGTGA GGGCCTGGGA
  AGTAGTTGCC GGTTTGCGGA GGAAGTGGCG TCAGGTGTGC GTTTTCCACG CCCCTCGCCA
  CTCACGTGCC GTCTTCCAGA GTCGTGATTG GTCAGCTGCG GTTCGTTCGC GGGCGCAGGG
  Y
  CCCGCTCGGG GCGTGCGCGC GCCCGGTTGT CGCCGCGGTG TGCGCTCCGG GTTTCTGTTG
  TTTAGGAGAG TCCCTACCGG AAGTGTGGCA GAAAGGAGCC ATGTGGAGTC TCAGGGTAGC
  TTGTCGCAAC GCTGCGTTGC GCCTAGAGGG CAGGCGAGCC GTTTTCCCTT CTTTTCCTCT
  TTTTCCTTCC CTGGGTCAGG                                            
  
  Y = C/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	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
ss359902679	MGP_WTSI_3_137806806	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	T	T	C	C	C	C	C	C	C	C	C	C	C
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	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
rs249090732					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	T	T	C	C	C	C	C	C	C	C	C	C	C

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
ss359902679	MGP_WTSI_3_137806806	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:137849603 () 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			424 bp upstream
Rr375797	regulatory region 375797			within coordinates
Rr398069	regulatory region 398069			1087 bp upstream
Rr586084	regulatory region 586084			465 bp distal
Rr586085	regulatory region 586085			315 bp distal
Rr586086	regulatory region 586086			435 bp distal
Rr586087	regulatory region 586087			within coordinates
Rr586088	regulatory region 586088			1253 bp proximal
Trmt10a	tRNA methyltransferase 10A			Intron
				mRNA-UTR
Tssr31944	transcription start site region 31944			365 bp downstream
Tssr31945	transcription start site region 31945			346 bp downstream
Tssr31946	transcription start site region 31946			within coordinates
Tssr31947	transcription start site region 31947			4 bp upstream
Tssr31948	transcription start site region 31948			46 bp upstream
Tssr31949	transcription start site region 31949			80 bp upstream
Tssr35880	transcription start site region 35880			446 bp upstream
Tssr35881	transcription start site region 35881			129 bp upstream
Tssr35882	transcription start site region 35882			110 bp upstream