rs242959172 SNP Detail

Summary

• ID
  rs242959172
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr3:40905666 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGTGAAGGC AGCTGGTATT
  AGGTGTTTTT GCGGTTGTGT GGTTGTGTTT CAGAATGCCT GACACAGGAC AGTTGATTCA
  GAGTCCGGAT CGCACAGCTG GTCCCACGGT AGCCTGCGCG TTAGCAATTG GGTTGTGCCT
  TTGCGTTCGA ATGCTGACCC ATGCAATATG GCCCTTGGGG CTTTATTTGG GTTGCAGCAA
  Y
  TGCAGTTAGA AAGTAAAATG AAGACTGGCT TGTATTTGGT GGCGTATGCC GATTGATGTA
  GAGGATTAGG CGTTCGAAGA GAAGTCAAAA AGAAAAAAGT TAGAATGGAA ATGCTGAGTA
  AAACTCTCCT TTTTCTTTTT TTTTCTTTTT TTAATAAAAC TGCACTAAAA TAACTGAACT
  TTTCTGTGGG AATTGCGGCT                                            
  
  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
ss357671145	MGP_WTSI_3_40755153	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	C	C	C	C	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
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
rs242959172					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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

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
ss357671145	MGP_WTSI_3_40755153	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40905666 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13115	CpG island 13115	26 bp distal
Gm64655	predicted gene, 64655	1706 bp upstream
Larp1b	La ribonucleoprotein 1B	within coordinates
Rr397652	regulatory region 397652	1418 bp downstream
Rr575871	regulatory region 575871	1717 bp distal
Rr575872	regulatory region 575872	1393 bp distal
Rr575873	regulatory region 575873	1156 bp distal
Rr575874	regulatory region 575874	429 bp distal
Rr575875	regulatory region 575875	within coordinates
Rr575876	regulatory region 575876	325 bp proximal
Tssr28976	transcription start site region 28976	1417 bp downstream
Tssr28977	transcription start site region 28977	1379 bp downstream
Tssr28978	transcription start site region 28978	1291 bp downstream
Tssr28979	transcription start site region 28979	1275 bp downstream
Tssr28980	transcription start site region 28980	1263 bp downstream
Tssr28981	transcription start site region 28981	813 bp downstream
Tssr28982	transcription start site region 28982	574 bp downstream
Tssr28983	transcription start site region 28983	393 bp downstream