rs29840801 SNP Detail

Summary

• ID
  rs29840801
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:30066495 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAAGGGGGG AAAATCCCAG
  ACTGTAAGCC AAAAGTCCGA ATGTGACTTT CTCAAGGCAA CACACGCAGT TGGCCAGTGA
  AGCTGTTACT TGGCAAGGTG AGACTCCACC GAAAGCCACT TCCAAAGTCG CTTGGCTGGT
  GCCAGGAATT CTGACTTTTG GCAACCCCAC CTTCTGCGTC CCCGAACCTG ACCGACTGAA
  Y
  GTAGGAGGGA GGGGAAGGAG GACGCGAGAG CCGAGAAGGC GGCAGCCAGC CGGGCTGACC
  CACCCGAGGC GGCGGAGTCC CAGCGACCAG GGACGCTCCG GGGGCACGGG GACCTCAGCG
  CAAACCCGGG ACGCAGACGC TGTCCCCAGC GACACCCTGC CCACAGCCAA GACTTTTTAA
  AGTGAGTTCG CTTACCTTCC                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss46886401	NES10819347	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C
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
rs29840801					SNP	C	C	C	C	C	C	T	C	C	C	C	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
ss46886401	NES10819347	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:30066495 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13032	CpG island 13032			within coordinates
D3Mit46	DNA segment, Chr 3, Massachusetts Institute of Technology 46			1093 bp proximal
D3Mit46.1	DNA segment, Chr 3, Massachusetts Institute of Technology 46.1			1264 bp proximal
D3Mit46.3	DNA segment, Chr 3, Massachusetts Institute of Technology 46.3			987 bp proximal
Mecom	MDS1 and EVI1 complex locus			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr574700	regulatory region 574700			1458 bp distal
Rr574701	regulatory region 574701			within coordinates
Rr574702	regulatory region 574702			44 bp proximal
Rr574703	regulatory region 574703			800 bp proximal
Tssr28678	transcription start site region 28678			137 bp downstream
Tssr32873	transcription start site region 32873			540 bp downstream
Tssr32874	transcription start site region 32874			658 bp downstream
Tssr32875	transcription start site region 32875			679 bp downstream
Tssr32876	transcription start site region 32876			790 bp downstream
Tssr32877	transcription start site region 32877			811 bp downstream
Tssr32878	transcription start site region 32878			886 bp downstream
Tssr32879	transcription start site region 32879			901 bp downstream
Tssr32880	transcription start site region 32880			981 bp downstream
Tssr32881	transcription start site region 32881			1003 bp downstream
Tssr32882	transcription start site region 32882			1042 bp downstream