rs49904154 SNP Detail

Summary

• ID
  rs49904154
• 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
  Chr3:90413989 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACAAGGGCTC AGGTAACAGC
  TCTTAAGAGA AGTGGAAAGC ATGAAATACA CGCAGTAAGC AAATATGATG ACAAGAAACA
  GAGATGCAGT TACAAAGACA AACAGAAATG CCGACACTTT TGGAGAGTGA AAGTTCATTC
  AAAGGACAAA CAGGAGGAAG GATCAGAGCA CCTTCAAAGT CCACTGAAAT AACAGACTCA
  Y
  GAGTTATGGG AGTTTATTAC ATTCTAACAT GTTACTTAGT AACACATGAA TACAGGAAAT
  TAATGTATCA CATCTTAAAA GATGAACAGA GAAGCACATG TGCTTCTGAA GCAAACACAG
  GCACTAAATT AAATGCCTTG GGAGTTCTAG CAACAACATA ATAAAATGGT GAAAGACACC
  AAATAAATGA AATTCTCAGA                                            
  
  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	A/J	AKR/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
ss60424401	NES15924233	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	C	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
rs49904154					SNP	T	T	T	C	T	T	T	T	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
ss60424401	NES15924233	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90413989 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Chtop	chromatin target of PRMT1			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr580380	regulatory region 580380			1160 bp distal
Rr580381	regulatory region 580381			1792 bp proximal
Tssr34235	transcription start site region 34235			301 bp upstream
Tssr34236	transcription start site region 34236			1377 bp downstream