rs253255652 SNP Detail

Summary

• ID
  rs253255652
• Variation Type
  SNP
• Alleles
  C/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
  Chr1:156766908 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGGAATCCC AGGCGCTGCG
  GGCAGCTAGC GCGGCGGTGC GGGACCCCCC TCCGTGTCCG CACGCGGCCT CCGCCGCCGC
  GGCGCCGCTC ACCCCGCGCT CCGCGGGCGG TTCGGCCCCG CAACAGGTCA CCCGCCTCGG
  CTCGGTGACG GGGGTGCAGG CGCCCCGGCC GAGAGGGGGT GTGGCTGGCG CGGCGGGGCC
  S
  GGCCCCGGCT CACCTGAGAG GCTGAGGCGA CGCCGGGGCC TCCGCCACCG CGGGACCGCG
  AGCGACCCGC AGCCCGCCCT CCCGCGCCGC GCACCGCGGC CGCCGCCGCC ATTGCCCGCG
  CCTCCCCACA CGCCCGCACG CCACGCCGAC CTGTGCAGCC GCGGCCGTCG CCTCCGCTTC
  GCCCGCGGCT CCGAGGCAAT                                            
  
  S = C/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/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss352049338	MGP_WTSI_1_158869469	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	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	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs253255652					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	G	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
ss352049338	MGP_WTSI_1_158869469	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:156766908 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930439D14Rik	RIKEN cDNA 4930439D14 gene			within coordinates
Cpgi904	CpG island 904			within coordinates
Ralgps2	Ral GEF with PH domain and SH3 binding motif 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr367037	regulatory region 367037			339 bp downstream
Rr421284	regulatory region 421284			1551 bp distal
Rr421285	regulatory region 421285			531 bp distal
Rr421286	regulatory region 421286			369 bp distal
Rr421287	regulatory region 421287			within coordinates
Rr421288	regulatory region 421288			15 bp distal
Rr421289	regulatory region 421289			39 bp proximal
Rr421290	regulatory region 421290			425 bp proximal
Rr421291	regulatory region 421291			481 bp proximal
Rr421292	regulatory region 421292			1463 bp proximal
Tssr9581	transcription start site region 9581			319 bp upstream
Tssr14474	transcription start site region 14474			1496 bp upstream
Tssr14475	transcription start site region 14475			529 bp upstream
Tssr14476	transcription start site region 14476			485 bp upstream
Tssr14477	transcription start site region 14477			195 bp downstream
Tssr14478	transcription start site region 14478			215 bp downstream
Tssr14479	transcription start site region 14479			290 bp downstream
Tssr14480	transcription start site region 14480			688 bp downstream