rs240252525 SNP Detail

Summary

• ID
  rs240252525
• 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
  Chr13:44885600 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCTTAACAA CACATCCTTT
  GGCTTGCAGT TTTAAGCGAT GGTTGTGAAT GTCAAGTTTA TAGATAATTC TGCAGCTGAA
  AGGTTTTAAA CAGCGTCCGA TAAAGCTCTT TCTTTTCCGA AAGGGCTTTT CAGGCAAAGT
  CGTGTCTGCC TAGTTTGGTT GAGAAAACAG ACTGGTGTAG AGATACCTCA AGTATATAAA
  Y
  TGACCTCGAA TGACACAACG TTGATGTAGT TTTGGTGAAA GGCAAGGGGT TTTGGTGGAG
  GTTGGGGTTC TGTGTGTGGG GGCCCCCGCA GTGATCTAAC TGCATTCTCG GGCGGATTTG
  GTCCCATATT GCACTTTGCA TACAAATGAG CCTGTTATTA GTGTTATTTG GAAAATCGTG
  TAAGGTATGT GTGTTGGAAG                                            
  
  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
ss388465238	MGP_WTSI_13_44827493	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	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
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
rs240252525					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	T	T	T	T	T	T	T	T	T	T	T	T	C	T	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
ss388465238	MGP_WTSI_13_44827493	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:44885600 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi5525	CpG island 5525			698 bp distal
Cpgi5526	CpG island 5526			1086 bp proximal
Jarid2	jumonji and AT-rich interaction domain containing 2			Intron
				Noncoding-Transcript-Variant
Rr369688	regulatory region 369688			1408 bp downstream
Rr403743	regulatory region 403743			736 bp downstream
Rr403744	regulatory region 403744			676 bp upstream
Rr478587	regulatory region 478587			843 bp distal
Rr478588	regulatory region 478588			904 bp distal
Rr478589	regulatory region 478589			1453 bp proximal
Tssr119539	transcription start site region 119539			1526 bp downstream
Tssr119540	transcription start site region 119540			1308 bp downstream
Tssr119541	transcription start site region 119541			1217 bp downstream
Tssr119542	transcription start site region 119542			1088 bp downstream
Tssr119543	transcription start site region 119543			848 bp downstream
Tssr119544	transcription start site region 119544			832 bp downstream
Tssr119545	transcription start site region 119545			783 bp downstream
Tssr119546	transcription start site region 119546			751 bp downstream
Tssr119547	transcription start site region 119547			541 bp downstream
Tssr119548	transcription start site region 119548			386 bp downstream
Tssr119549	transcription start site region 119549			263 bp downstream
Tssr119550	transcription start site region 119550			1910 bp upstream