rs52270331 SNP Detail

Summary

• ID
  rs52270331
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:116762644 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTGACTGAC AAGTTTGAAC
  GGCAGCCGCA CAAGCCCTTT TCCTTCAGGG GCTGCCAGCT CTTTGTTGTG CTGTGCACGG
  TTAGCGAGAC ACATTTTCTT ATTAACTGTT CCTTACCCAA GTCATTATTT TCCAGGAGTG
  GCGCAGGGAG CTGCCGTGCT GAGTGTCGGG GTCCGGGCAG CCCAGGTTTT CCTGTGAGCC
  Y
  GTGTGTGTTT AAAGTTATCT CGCTTAGTTT ATCTCGGGGG GGGGGGGGGG ATGAGAGAGA
  GAGAGAGAGA GAGAGAGAGA GAGAGAGAGA GAGAGAGAGA GAGAGAGAGA AGTGCTAAGT
  CACTTGTTTG TTATCTCCCT CTGCTTGGCT TTAGGTAATG GTGATGGCTC CTTTAGTAAC
  CGAAGAACCC TTAGAGTAGA                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60435446	NES15933262	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs52270331					SNP	T	T	T	T	T	T	T	T	T	T	C	T	T	C	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
ss60435446	NES15933262	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:116762644 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930455H04Rik	RIKEN cDNA 4930455H04 gene			Intron
Gm52613	predicted gene, 52613			982 bp downstream
Palmd	palmdelphin			mRNA-UTR
				Noncoding-Transcript-Variant
Rr583815	regulatory region 583815			1791 bp distal
Rr583817	regulatory region 583817			718 bp distal
Rr583818	regulatory region 583818			within coordinates
Tssr35360	transcription start site region 35360			444 bp upstream
Tssr35361	transcription start site region 35361			427 bp upstream
Tssr35362	transcription start site region 35362			362 bp upstream
Tssr35363	transcription start site region 35363			303 bp upstream
Tssr35364	transcription start site region 35364			227 bp upstream
Tssr35365	transcription start site region 35365			206 bp upstream
Tssr35366	transcription start site region 35366			180 bp upstream
Tssr35367	transcription start site region 35367			161 bp upstream
Tssr35368	transcription start site region 35368			57 bp upstream
Tssr35369	transcription start site region 35369			within coordinates
Tssr35370	transcription start site region 35370			17 bp downstream
Tssr35371	transcription start site region 35371			519 bp downstream