rs253792023 SNP Detail

Summary

• ID
  rs253792023
• 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
  Chr3:90421080 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGGAACCCT CTAGCAGCTT
  GGAATTTTAT GTAGGGGAGG ATCTGGGCTT GGAGCAGTGG GAAACAAAGA GGGAAAAATT
  AGGGGAGAGA GGAGAGGGGG TCAAGGCTGA GAAAGAAGGG CTAGAGAGGA GGTCTGTGAG
  GCAGAGATGG GACAGTGCAC ACCGCCACAG ACCCCCTTCT TTAAGAAAGA TACCACATGA
  Y
  GTAAGCTCCA CTGCTAGGAG CCTTCCCTGG CTCTTGAGAA GGCAGAGAGT GAGGGTGGAG
  AAGGGGCAGG GACAGCTTTT CTTATTCTTA CCCTGAAGGA GCAGGGCTGT ATCTCCTCCC
  TGCCCACACC TAGAGACTGG CGTCCCTGGC AGGAGACACA GGATTCTGTG TAGGAAGACC
  TGGTAGCCTG GAAGCTGGGT                                            
  
  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
ss358833694	MGP_WTSI_3_90317695	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	T	C	C	C	C	C	C	C	C	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
rs253792023					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	T	C	C	C	C	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
ss358833694	MGP_WTSI_3_90317695	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90421080 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13466	CpG island 13466	411 bp proximal
Rr375350	regulatory region 375350	within coordinates
Rr580384	regulatory region 580384	within coordinates
Rr580385	regulatory region 580385	188 bp proximal
Rr580386	regulatory region 580386	305 bp proximal
Rr580387	regulatory region 580387	495 bp proximal
Rr580388	regulatory region 580388	605 bp proximal
Rr580389	regulatory region 580389	609 bp proximal
Rr580390	regulatory region 580390	673 bp proximal
S100a1	S100 calcium binding protein A1	Intron
S100a13	S100 calcium binding protein A13	579 bp upstream
Tssr30209	transcription start site region 30209	1145 bp upstream
Tssr30210	transcription start site region 30210	1211 bp upstream
Tssr34241	transcription start site region 34241	1707 bp upstream
Tssr34242	transcription start site region 34242	477 bp downstream
Tssr34243	transcription start site region 34243	583 bp downstream
Tssr34244	transcription start site region 34244	597 bp downstream
Tssr34245	transcription start site region 34245	632 bp downstream