rs50102733 SNP Detail

Summary

• ID
  rs50102733
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:116762541 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGTCAGGAG CGGAGCGGCT
  CAGAGCCCAT GCACAGATGA GGCCAGACAG ACACATGTAA TGAGGGTGCA CTGGGGAGGC
  AGACGCTGAG GCTGCTGGCA CGAGTTGACT GACAAGTTTG AACGGCAGCC GCACAAGCCC
  TTTTCCTTCA GGGGCTGCCA GCTCTTTGTT GTGCTGTGCA CGGTTAGCGA GACACATTTT
  Y
  TTATTAACTG TTCCTTACCC AAGTCATTAT TTTCCAGGAG TGGCGCAGGG AGCTGCCGTG
  CTGAGTGTCG GGGTCCGGGC AGCCCAGGTT TTCCTGTGAG CCTGTGTGTG TTTAAAGTTA
  TCTCGCTTAG TTTATCTCGG GGGGGGGGGG GGGATGAGAG AGAGAGAGAG AGAGAGAGAG
  AGAGAGAGAG AGAGAGAGAG                                            
  
  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	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60435447	NES15933261	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs50102733					SNP	C	C	C	C	C	C	T	C	C	C	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
ss60435447	NES15933261	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:116762541 () 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			879 bp downstream
Palmd	palmdelphin			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr583815	regulatory region 583815			1688 bp distal
Rr583817	regulatory region 583817			615 bp distal
Rr583818	regulatory region 583818			within coordinates
Tssr35360	transcription start site region 35360			341 bp upstream
Tssr35361	transcription start site region 35361			324 bp upstream
Tssr35362	transcription start site region 35362			259 bp upstream
Tssr35363	transcription start site region 35363			200 bp upstream
Tssr35364	transcription start site region 35364			124 bp upstream
Tssr35365	transcription start site region 35365			103 bp upstream
Tssr35366	transcription start site region 35366			77 bp upstream
Tssr35367	transcription start site region 35367			58 bp upstream
Tssr35368	transcription start site region 35368			36 bp downstream
Tssr35369	transcription start site region 35369			77 bp downstream
Tssr35370	transcription start site region 35370			120 bp downstream
Tssr35371	transcription start site region 35371			622 bp downstream