rs49209940 SNP Detail

Summary

• ID
  rs49209940
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  132
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:108814699 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                      T AGCTGCAAGA TAAGTTTATG CTCCTCCTAA GCGCCTGTCT
  CTGTGCCTGT ACATAGACCA GACTACGCTA AATTATGAAG TATGAAGCTT GCCCCAAACC
  Y
  TAAGAGCCTT TAAGAATCAG CACTTGTGCT TGTTTTCTGC AACTTCATGG TCCAGTCTCT
  CCTTTGAGGA CCCCGTCCTT CTCTGCACAC GCATCTCTCT C                    
  
  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	129X1/SvJ	A/J	DBA/2J
ss133510231	ENSMUSSNP4934527	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	C	C
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	DBA/2J
rs49209940					SNP	T	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:108814699 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Edem1	ER degradation enhancer, mannosidase alpha-like 1			Intron
				Noncoding-Transcript-Variant
Rr368139	regulatory region 368139			1612 bp downstream
Rr368140	regulatory region 368140			1364 bp downstream
Rr368141	regulatory region 368141			1843 bp upstream
Rr636220	regulatory region 636220			866 bp distal
Rr636221	regulatory region 636221			283 bp proximal
Rr636222	regulatory region 636222			1581 bp proximal
Tssr58109	transcription start site region 58109			1637 bp downstream
Tssr58110	transcription start site region 58110			1466 bp downstream
Tssr58111	transcription start site region 58111			1424 bp downstream
Tssr58112	transcription start site region 58112			1401 bp downstream
Tssr58113	transcription start site region 58113			1382 bp downstream
Tssr58114	transcription start site region 58114			1368 bp downstream
Tssr58115	transcription start site region 58115			1331 bp downstream
Tssr58116	transcription start site region 58116			1105 bp downstream
Tssr58117	transcription start site region 58117			1086 bp downstream
Tssr58118	transcription start site region 58118			1040 bp downstream
Tssr58119	transcription start site region 58119			999 bp downstream
Tssr58120	transcription start site region 58120			1475 bp upstream