rs253882052 SNP Detail

Summary

• ID
  rs253882052
• 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
  Chr3:135396809 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTACATCTT TCTAAAACTT
  TGCAAGAGTT CCTCTCCGCT TCCCGTTCCC GCCCGCGGAG ACGCCGAGGG CCCCGCCAGC
  CGGCCCGCAA GGCCTCGGGG CCGCCCAGTG CGGATGTGCC CTTTCCCCGC AGCCGGGGCC
  GCTCGATCCG CGACTCCTGC TTGGGGCTCT CCCCTAGTCC CCCCCCGAAC CCCGGGAGCT
  Y
  CGAGCCAGTG GGACCCGCTG CACCGTGGTG CGGAGAGCTG GCGGCTCCGT TCCTCTACCT
  GCCCCGGGGC TTACCCTGGA GATGCGGCGC GGCCTCTCCT CGCCTGCGGG CTCCCGCTGC
  GGAGCGGCGC GGACCGGCGG GAGCCCGAGC CGGGTCGGGG CGCGGGCGGG CGGGCGGGCG
  GCTCAGCGGC GCGCCATGGC                                            
  
  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	129S1/SvImJ	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/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	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
ss359841222	MGP_WTSI_3_135354012	EVA_MGPV3	EVA_MGPV3	f	SNP	C	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	C	T	C	T	C	T	T	C	T	T	T	C	T	T	T	C	C	T	T	C	T	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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/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	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
rs253882052					SNP	C	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	C	T	C	T	C	T	T	C	T	T	T	C	T	T	T	C	C	T	T	C	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
ss359841222	MGP_WTSI_3_135354012	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:135396809 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13858	CpG island 13858	within coordinates
Nfkb1	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	Intron
Rr398044	regulatory region 398044	610 bp downstream
Rr585767	regulatory region 585767	488 bp proximal
Rr585768	regulatory region 585768	1982 bp proximal
Tssr31841	transcription start site region 31841	1917 bp downstream
Tssr31842	transcription start site region 31842	1898 bp downstream
Tssr31843	transcription start site region 31843	1880 bp downstream
Tssr31844	transcription start site region 31844	1845 bp downstream
Tssr31845	transcription start site region 31845	1805 bp downstream
Tssr35823	transcription start site region 35823	1780 bp upstream
Tssr35824	transcription start site region 35824	1266 bp upstream
Tssr35825	transcription start site region 35825	91 bp downstream
Tssr35826	transcription start site region 35826	217 bp downstream
Tssr35827	transcription start site region 35827	226 bp downstream
Tssr35828	transcription start site region 35828	277 bp downstream
Tssr35829	transcription start site region 35829	337 bp downstream
Tssr35830	transcription start site region 35830	363 bp downstream
Tssr35831	transcription start site region 35831	372 bp downstream
Tssr35832	transcription start site region 35832	440 bp downstream
Tssr35833	transcription start site region 35833	464 bp downstream
Tssr35834	transcription start site region 35834	891 bp downstream