rs51880407 SNP Detail

Summary

• ID
  rs51880407
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr3:116408442 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCCAGCCAG GGAAAGAGAG
  GGGTGTAACC CGGCTGTTGT TTGCCTGTCT TTCTTTCCAG CACACAGAAA TGTTTGTTTT
  GCCCTGCTGG GGTTTAACCC AGGGCCTTCT GCATACTTGG CAAGTGCTCT GCAGTGAGCT
  TCAAACCTTG CACATCAGAG AAATGTAAAC AGTGTTGGTG TTTGCTACAG CACATCTGTG
  S
  GTGCCTTGGC ACGAGTGATA GTCTCTATTA GTAGAAGTTA TTTTCAGATT TATTTGTATG
  TATTTTGAGA CAGGGTTTCC TGTGTCCCCG AGATTGGCTT CAGACTCCTG ATCTCAAAGC
  GGCTTTGCCT TACTTAGTAG GTGGACCAGA GGCCTGTGCC GCCATTTCTG ATTTTTGTTT
  GTTTGCTTTG TTTTTTGAGA                                            
  
  S = C/G
  

  
  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	A/J	AKR/J	BALB/cByJ	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	NOD/ShiLtJ	NZW/LacJ
ss60436667	NES15940259	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	G	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	BALB/cByJ	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	NOD/ShiLtJ	NZW/LacJ
rs51880407					SNP	C	C	C	C	G	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
ss60436667	NES15940259	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:116408442 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr375622	regulatory region 375622			1518 bp upstream
Rr583752	regulatory region 583752			217 bp distal
Rr583753	regulatory region 583753			within coordinates
Sass6	SAS-6 centriolar assembly protein			Intron
				Noncoding-Transcript-Variant
Trmt13	tRNA methyltransferase 13			206 bp upstream