rs253908290 SNP Detail

Summary

• ID
  rs253908290
• 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
  Chr13:58422062 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGAGCTGCGA GGCTCCGTAG
  ACTCACCGGG CCTCCCTCGC CGCGGTGCGG CCGCTCCCGT CTCCCCGCCG CTCCCGCGCT
  ACCCCCGGGC GTTGGGCGCG GGCCGCGGGG CGTCCGCAGT AACGGGCCCG CGGAGGGCGG
  CGGCGCGCGG AGGGCGGGGC GGGGCGGGGC GGGGCGGACC CGCAAGCCTG GCGCCCGCCG
  Y
  GGCCGGCCGG CGCGCGGGAC TTCTTTGCCG AGGGTCGCAG CGCGGCGGAC GCTGACGCCG
  AGGAGAGGTC CGCGGGGGAC GGACTGCGGA GGACCAGAAC CACCTGCTGG AGGAGCCGCG
  CTACGGGGGC CGCGCAGGGT CCAAACGGCT CGCGTAGGCG GCGGCTCCGC GGTCCTCGGG
  GTCGCGGAGC CGGGAAGGTG                                            
  
  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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss388759167	MGP_WTSI_13_58375609	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	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T
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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs253908290					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T

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
ss388759167	MGP_WTSI_13_58375609	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:58422062 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5724	CpG island 5724	within coordinates
Gkap1	G kinase anchoring protein 1	within coordinates
Rr481008	regulatory region 481008	71 bp distal
Rr481009	regulatory region 481009	within coordinates
Tssr120072	transcription start site region 120072	4 bp upstream
Tssr122823	transcription start site region 122823	133 bp upstream
Tssr122824	transcription start site region 122824	41 bp upstream
Tssr122825	transcription start site region 122825	15 bp downstream
Tssr122826	transcription start site region 122826	92 bp downstream
Tssr122827	transcription start site region 122827	119 bp downstream
Tssr122828	transcription start site region 122828	213 bp downstream
Tssr122829	transcription start site region 122829	256 bp downstream
Tssr122830	transcription start site region 122830	585 bp downstream
Tssr122831	transcription start site region 122831	1399 bp downstream
Tssr122832	transcription start site region 122832	1452 bp downstream