rs48801654 SNP Detail

Summary

• ID
  rs48801654
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:127583666 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCTTGTTG GAGAAGGTGC
  GGTCGCCCCG GGTGCCCGGC GACTCAAACC CGGTCAGTCA GGAGACCTCA GAGAGGCGAC
  AGGGGGCAGG GCTTCCTGTG GAAAAGGGCT GGACGGCGGC GGCAGCCTCT TGCCTGGCTC
  TGCGGGGCTT TCCTCCCGGC AAGGGCTTTG CCGAGGTCAC TCGCGCGAGG CCGCTCTTGG
  M
  GCGCCCGTGG GAGGCTCGGT GGCGTGGGAG GACCAGCGAC CTGCGGATTC CTCGAGCTCC
  CACGGCGCTG GCAGCGACGG TCCCCCACCC CCACCCCTAT CCCCAGGCTT CCACCAGAAG
  GCTCCGCAAG ACTCACGGAC CTCCAAGTCC CCAGGTACCT ATTGGTCACC TGTTTAGCTT
  GAGAGTGGGG GACTGTCGCT                                            
  
  M = A/C
  

  
  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	DBA/2J	LG/J	SM/J
ss135871350	ENSMUSSNP1025119	ENSEMBL	ENSEMBL_Sanger	f	SNP	A	C
ss320956919	CHEV_3_127492935	CHEVERUD	SCREENING_POP	f	SNP			C	A
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J	LG/J	SM/J
rs48801654					SNP	A	C	C	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:127583666 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13800	CpG island 13800	within coordinates
Cpgi13801	CpG island 13801	621 bp proximal
Gm56817	predicted gene, 56817	within coordinates
Gm65225	predicted gene, 65225	376 bp downstream
Rr584859	regulatory region 584859	1703 bp distal
Rr584860	regulatory region 584860	95 bp distal
Rr584861	regulatory region 584861	198 bp distal
Rr584862	regulatory region 584862	within coordinates
Rr584863	regulatory region 584863	230 bp proximal
Rr584864	regulatory region 584864	798 bp proximal
Tifa	TRAF-interacting protein with forkhead-associated domain	within coordinates
Tssr31594	transcription start site region 31594	815 bp downstream
Tssr31595	transcription start site region 31595	803 bp downstream
Tssr31596	transcription start site region 31596	770 bp downstream
Tssr31597	transcription start site region 31597	730 bp downstream
Tssr31598	transcription start site region 31598	707 bp downstream
Tssr31599	transcription start site region 31599	208 bp downstream
Tssr31600	transcription start site region 31600	140 bp downstream
Tssr31601	transcription start site region 31601	88 bp downstream
Tssr31602	transcription start site region 31602	34 bp downstream
Tssr31603	transcription start site region 31603	16 bp downstream
Tssr31604	transcription start site region 31604	86 bp upstream
Tssr31605	transcription start site region 31605	585 bp upstream
Tssr31606	transcription start site region 31606	783 bp upstream
Tssr31607	transcription start site region 31607	1021 bp upstream
Tssr31608	transcription start site region 31608	1089 bp upstream
Tssr31609	transcription start site region 31609	1140 bp upstream
Tssr31610	transcription start site region 31610	1249 bp upstream
Tssr31611	transcription start site region 31611	1357 bp upstream
Tssr35598	transcription start site region 35598	259 bp upstream
Tssr35599	transcription start site region 35599	177 bp upstream
Tssr35600	transcription start site region 35600	149 bp upstream
Tssr35601	transcription start site region 35601	116 bp upstream
Tssr35602	transcription start site region 35602	184 bp downstream