rs239599910 SNP Detail

Summary

• ID
  rs239599910
• 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
  Chr3:131195438 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCTTCAGT ATTTCAAACA
  CATGTCAAAA TAATTTAAGG TCATTTTAGA AATAAGCAAG TCTTGGAAAT AGAGGAACGG
  CGGATTAATA AAAGATTACA GGATATAGCA TTTGAACTAT TTGCTTCTGA GACAGAACGA
  TCACCGGACC CACAGATTGT GACGGGGTAA GGTCCACTCC CACCTCTCTG TGCTGACAAA
  Y
  CGAATCTCCC TTCCTTAAGG GGCGCGGGTC TGAACGCCAA AGGTCCTGTT GGGCAGCCTG
  GAGCTGGTCT TGTGCACAGC TTGTCAGCGT GTGGCAGCCT CTCCTCCACC ACTCGAACTT
  CAACCCTGAC CCCCCAGAGC GGCACTGCAC AATCTACGGT TTAACCTGTG CCATTTCAAC
  ACCATCACCA AGTATCCGAA                                            
  
  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	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
ss359739290	MGP_WTSI_3_131152641	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	C	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	C	T	T	T	T	T	T	C	T	T	T	C	T	T	T	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	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
rs239599910					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	C	T	T	T	T	T	T	C	T	T	T	C	T	T	T	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
ss359739290	MGP_WTSI_3_131152641	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131195438 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			within coordinates
Gm36753	predicted gene, 36753			639 bp upstream
Rr585350	regulatory region 585350			786 bp distal
Rr585351	regulatory region 585351			215 bp proximal
Rr585352	regulatory region 585352			728 bp proximal
Rr585353	regulatory region 585353			988 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			35 bp upstream
Tssr1056	transcription start site region 1056			328 bp upstream
Tssr31735	transcription start site region 31735			60 bp upstream
Tssr31736	transcription start site region 31736			674 bp upstream
Tssr31737	transcription start site region 31737			1882 bp upstream
Tssr35707	transcription start site region 35707			656 bp upstream
Tssr35708	transcription start site region 35708			627 bp upstream
Tssr35709	transcription start site region 35709			70 bp downstream
Tssr35710	transcription start site region 35710			86 bp downstream
Tssr35711	transcription start site region 35711			234 bp downstream
Tssr35712	transcription start site region 35712			260 bp downstream
Tssr35713	transcription start site region 35713			501 bp downstream
Tssr35714	transcription start site region 35714			775 bp downstream
Tssr35715	transcription start site region 35715			833 bp downstream
Tssr35716	transcription start site region 35716			976 bp downstream
Tssr35717	transcription start site region 35717			1052 bp downstream
Tssr35718	transcription start site region 35718			1070 bp downstream
Tssr35719	transcription start site region 35719			1313 bp downstream
Tssr35720	transcription start site region 35720			1376 bp downstream
Tssr35721	transcription start site region 35721			1598 bp downstream
Tssr35722	transcription start site region 35722			1650 bp downstream
Tssr35723	transcription start site region 35723			1709 bp downstream
Tssr35724	transcription start site region 35724			1722 bp downstream
Tssr35725	transcription start site region 35725			1760 bp downstream