rs249522189 SNP Detail

Summary

• ID
  rs249522189
• Variation Type
  SNP
• Alleles
  A/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
  Chr6:71521831 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGTCTCGGCT CTCTGATCTC
  GAAAAACTTG TCCGAGACTT CTCCTATGTC AAGTAGGAAG AGTGCTACCG CAGTAATTGA
  CCATTGAAGG ATGTGAAGTT TGAGCTAGTA GTGGTAGTGA AGGTGCATTC TTTTTTTTGT
  TTTGTTTTTG TTTTTTTCGA GACAGGGTTT CTCTGTGTAG ACCTGGCTGT CCTGGAACTC
  W
  CTTTGTAGAC CAGGCTGGCC TCGAACTCAG AAATCCGCCT GCCTCTGCCT CCCAAGTGCT
  GGGATTAAAG GCATGCGCCA CCACCGCCCA GCGTGAAGGT GCATTCTTTA CACACCCAGC
  CTTATTACTG ACCACCAGTA GTCGCACCAA CAGTACCAGC TCCCAGCACA TAGCACTTGT
  GGGGTCCCAT TCCAGACCTA                                            
  
  W = A/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	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
ss368727559	MGP_WTSI_6_71494841	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	A	A	T	T	A	T	T	T	T	A	A	T	T	T	T	A	T	T	T	T	A	A	A	A	A	T	T	T	T	A	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	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
rs249522189					SNP	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	A	A	T	T	A	T	T	T	T	A	A	T	T	T	T	A	T	T	T	T	A	A	A	A	A	T	T	T	T	A	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
ss368727559	MGP_WTSI_6_71494841	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:71521831 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
1700040L08Rik	RIKEN cDNA 1700040L08 gene			733 bp upstream
Chmp3	charged multivesicular body protein 3			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Cpgi17526	CpG island 17526			228 bp distal
Rr399696	regulatory region 399696			879 bp downstream
Rr631970	regulatory region 631970			920 bp distal
Rr631971	regulatory region 631971			243 bp distal
Tssr57031	transcription start site region 57031			979 bp downstream
Tssr57032	transcription start site region 57032			949 bp downstream
Tssr57033	transcription start site region 57033			890 bp downstream
Tssr57034	transcription start site region 57034			861 bp downstream
Tssr57035	transcription start site region 57035			480 bp downstream
Tssr57036	transcription start site region 57036			386 bp upstream