rs27798209 SNP Detail

Summary

• ID
  rs27798209
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr4:48048919 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGTGAGCT TACTGGGTGC
  CAGCAACCTT CCCTTAGCTT CCTACGACGG TGTGATGCTT CTTGCCCAGT AGCTCCGTGA
  GCCCTAAGCA CTTTCACTTA ACCTTATGAC AATTCTTTGT AATTATCTAG TGTTTCTACA
  GGTCCCCCAC CCCCACCCCA TTCACCCAGT CCTGGGAAAG AGGACCCAGC TTAATCTTAC
  Y
  GCAATCTCTG TTCCCTTTCT CGGTGCCTGC AGAGCCCACT GCGGGAGAGC GCAGCCCGAC
  AAGCCCGGGC GCTGAGCCTG GACCCTCAGC AGAGCGGGCC AGCACAGCGG CTGCTGCTTC
  GCCTATCCCG ACGTCCCCGC CTCCTACACT CTCAGCCTCC GCTGGAGAGA CCCCCAGCCC
  CACCATTCAG CGCGCAAGAT                                            
  
  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
ss37986739	NES09426866	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	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
rs27798209					SNP	C	C	C	C	C	C	T	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
ss37986739	NES09426866	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:48048919 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14279	CpG island 14279	188 bp distal
Cpgi14280	CpG island 14280	within coordinates
Gm68858	predicted gene, 68858	1721 bp upstream
Nr4a3	nuclear receptor subfamily 4, group A, member 3	within coordinates
Rr591928	regulatory region 591928	1732 bp distal
Rr591930	regulatory region 591930	1231 bp distal
Rr591931	regulatory region 591931	873 bp distal
Rr591932	regulatory region 591932	within coordinates
Tssr37195	transcription start site region 37195	1661 bp downstream
Tssr37196	transcription start site region 37196	1640 bp downstream
Tssr37197	transcription start site region 37197	1609 bp downstream
Tssr37198	transcription start site region 37198	1592 bp downstream
Tssr37199	transcription start site region 37199	1542 bp downstream
Tssr37200	transcription start site region 37200	1530 bp downstream
Tssr37201	transcription start site region 37201	1166 bp downstream
Tssr37202	transcription start site region 37202	1031 bp downstream
Tssr37203	transcription start site region 37203	1003 bp downstream
Tssr37204	transcription start site region 37204	830 bp downstream
Tssr37205	transcription start site region 37205	800 bp downstream
Tssr37206	transcription start site region 37206	636 bp downstream
Tssr37207	transcription start site region 37207	107 bp upstream
Tssr37208	transcription start site region 37208	161 bp upstream
Tssr37209	transcription start site region 37209	1007 bp upstream
Tssr37210	transcription start site region 37210	1858 bp upstream
Tssr41633	transcription start site region 41633	1958 bp upstream
Tssr41634	transcription start site region 41634	1769 bp upstream
Tssr41635	transcription start site region 41635	129 bp downstream
Tssr41636	transcription start site region 41636	178 bp downstream