rs253503390 SNP Detail

Summary

• ID
  rs253503390
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:89961161 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGATTTTTCT CGGACTTTAA
  AAGAAGACTT TTATTCATAT GCTTCCTTTC ATTCCACAGT CTAAGCAATA ACTTCCTGCT
  CACTGCTGCT CCACAACATG TACCTTAAGA TTTAAACCAA TTCAGCTGTA AAATGTCTCA
  TCTTCAACTA AAATTACTAA ATATTTCATG TTGCTTTAGT TTAAGCATGA TGCTGAGAAC
  M
  CTTACAGTTG GTTCCAGCGT TGTGAGAATG GTTGCCTTTG CAGAATTTTA AAGATGCCCA
  TTGTGCTTGC TTAGAATGCA GACGACTGGG TTTAATCCTT GACACTGCTG AAAGCAAGGG
  GCGGGGCAAT AATCACCTAG TTATACTTTT CAAGTCAAAC CTAAAGCCAA AGAAAGAAAT
  TACCTAACAA CTTTTTAATG                                            
  
  M = A/C
  

  
  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
ss358825095	MGP_WTSI_3_89857776	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A
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
rs253503390					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A

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
ss358825095	MGP_WTSI_3_89857776	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:89961161 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4933434E20Rik	RIKEN cDNA 4933434E20 gene			Intron
				Noncoding-Transcript-Variant
Cpgi13449	CpG island 13449			437 bp distal
Gm53012	predicted gene, 53012			Intron
Rr375341	regulatory region 375341			611 bp downstream
Rr580268	regulatory region 580268			1413 bp distal
Rr580269	regulatory region 580269			1956 bp distal
Rr580270	regulatory region 580270			973 bp distal
Tssr30149	transcription start site region 30149			997 bp downstream
Tssr30150	transcription start site region 30150			918 bp downstream
Tssr34189	transcription start site region 34189			1395 bp upstream
Tssr34190	transcription start site region 34190			1333 bp upstream
Tssr34191	transcription start site region 34191			1227 bp upstream
Ubap2l	ubiquitin-associated protein 2-like			1226 bp upstream