rs49413458 SNP Detail

Summary

• ID
  rs49413458
• 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
  Chr3:116760596 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGCCTCAGT GAAAATTCCT
  TGGCTTTCTG AATAACTCTC AGCCGCCATC TACTTGGACC ATGCCCTAGT TCACTAAATG
  CTCTAAGCTG CAAACCACAC TTAGCAAGAC CTTAAAATAA GATGTTCCCC AGTTCAGTAG
  CAGAGACACA GAAGAAGGTG TCTGTGTGCA TCACCGAGTC AACTGTTTCA TTTGGTTATC
  Y
  GGGAGGTAAA GCCGTGGGGA GAAATGGAAC CTAGTTGTGA GCGACTCACA CGGCCCAGTG
  AAGTAACCTT TAGCCAACAG CTGTAATGTG AAAGGGCCAT GCCAAGAACA ACAGAGCACA
  GTGGAGTTCC TGTCCCTTCT AGGAGGACAG CTGAAGCTGT GGCCGGATTT AACAACAAAA
  CAAAACAAAC AAAAATCCAG                                            
  
  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	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60435457	NES15933248	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49413458					SNP	C	C	C	C	C	C	T	C	C	C	C	T	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
ss60435457	NES15933248	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:116760596 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930455H04Rik	RIKEN cDNA 4930455H04 gene			1320 bp upstream
Cpgi13743	CpG island 13743			1646 bp proximal
Gm52613	predicted gene, 52613			247 bp upstream
Palmd	palmdelphin			Intron
				Noncoding-Transcript-Variant
Rr583814	regulatory region 583814			312 bp distal
Rr583815	regulatory region 583815			within coordinates
Rr583816	regulatory region 583816			140 bp distal
Rr583817	regulatory region 583817			1230 bp proximal
Rr583818	regulatory region 583818			1901 bp proximal
Tssr35360	transcription start site region 35360			1591 bp downstream
Tssr35361	transcription start site region 35361			1616 bp downstream
Tssr35362	transcription start site region 35362			1681 bp downstream
Tssr35363	transcription start site region 35363			1729 bp downstream
Tssr35364	transcription start site region 35364			1765 bp downstream
Tssr35365	transcription start site region 35365			1825 bp downstream
Tssr35366	transcription start site region 35366			1843 bp downstream
Tssr35367	transcription start site region 35367			1880 bp downstream
Tssr35368	transcription start site region 35368			1981 bp downstream