rs254996564 SNP Detail

Summary

• ID
  rs254996564
• 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
  Chr6:108807251 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTACCTTAT GGAAGCCAGG
  AAGGATTCTT AGTTTCAAAA AGGAAAGCTA AGGGCTGATG AGATGACTCA GCCAGTAAGG
  GCCCTTGGCA CTGTGCTCAG ACGGGAGTTT GATTCCCCAG GACCCACATG GAAGAAGGAG
  AAAGAACCGA AGAGACTCCT GCAGTTGTCC TCTGACCTCT ACTCGCACTC CGTGACTCCC
  M
  CACACAGCTA GCTAGTACTC TAAAAGTGCA GGAAGAGCTA TAAAAAGTGG GTTGGTTATC
  TGTAGATTTG TGTCTGAATT TGCAGCCCGA TGAGCTTTAA GAGGGAGCAT CTCACACAGA
  GGGCCTGGGT CTTTTCATAG TTGTAGCAGA CTGATGCACT ATGTATATGT ATACGTCAGC
  CTTTGTATAT GTTGAAAAAC                                            
  
  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
ss369596557	MGP_WTSI_6_108780284	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	C	C	C	C	C	C	C	C	A	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
rs254996564					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	C	C	C	C	C	C	C	C	A	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
ss369596557	MGP_WTSI_6_108780284	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:108807251 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
9430088B20Rik	RIKEN cDNA 9430088B20 gene			1556 bp upstream
Cpgi17816	CpG island 17816			649 bp distal
Edem1	ER degradation enhancer, mannosidase alpha-like 1			Intron
				Noncoding-Transcript-Variant
Rr399823	regulatory region 399823			1653 bp downstream
Rr636213	regulatory region 636213			1947 bp distal
Rr636214	regulatory region 636214			1606 bp distal
Rr636215	regulatory region 636215			1120 bp distal
Rr636216	regulatory region 636216			1480 bp proximal
Tssr58099	transcription start site region 58099			1773 bp downstream
Tssr58100	transcription start site region 58100			1748 bp downstream
Tssr58101	transcription start site region 58101			1732 bp downstream
Tssr58102	transcription start site region 58102			1725 bp downstream
Tssr58103	transcription start site region 58103			1686 bp downstream
Tssr58104	transcription start site region 58104			1674 bp downstream
Tssr58105	transcription start site region 58105			1569 bp downstream
Tssr58106	transcription start site region 58106			1546 bp downstream
Tssr58107	transcription start site region 58107			1146 bp downstream
Tssr62395	transcription start site region 62395			1906 bp upstream