rs48474409 SNP Detail

Summary

• ID
  rs48474409
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr15:80078521 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAGGTGGTG TTTGGCAGGG
  TAGGCTTGTG CAGCGGGACC CTCGTGGTTG CCTGGTCACC GGTTTGAGGC AGAGAAACGC
  ATGGCTTGAG AACTGCAGAT GCCAGGCGGC CGCCAGCCAG CTGTGTGTCA GGACCTCTGT
  CCTCCAGAGG GTAGGGAAGA AGGTGGCACA CGGTGTCTGG CGGCAGACAA TACTCCAGCC
  R
  TCAGCTGCCA TGGAGGGAAG GATGATGAAG GTCTCCCACA GTCTGTCCAC TCCTGCCTGG
  TTACAGGGCT TAGCTGCATC CTTCTGTATC CTTCACAGAC GAGCTCTCTT CAGCTCCCTC
  AGCTGTCCTC TGTCCCTCTG TGCTGAGCTC CCTAAGGGTT TTTGTGTTAA AAAAAAATTA
  ATAATCTGTT TTTTCTTTCC                                            
  
  R = A/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	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
ss63569429	NES17022417	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	G	A	A	A	G	A	A	G	A
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
rs48474409					SNP	A	A	A	A	A	A	G	A	A	A	G	A	A	G	A

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
ss63569429	NES17022417	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr15:80078521 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm63613	predicted gene, 63613			within coordinates
Mgat3	mannoside acetylglucosaminyltransferase 3			Intron
				Noncoding-Transcript-Variant
Rr505909	regulatory region 505909			1308 bp distal
Rr505910	regulatory region 505910			763 bp distal
Tssr4660	transcription start site region 4660			1188 bp downstream
Tssr132187	transcription start site region 132187			1306 bp downstream
Tssr132188	transcription start site region 132188			1250 bp downstream
Tssr132189	transcription start site region 132189			1235 bp downstream