rs6403489 SNP Detail

Summary

• ID
  rs6403489
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  116
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:70885614 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                         CNCAGGCTGA
  GCTAGTTCAC AGAGAATGTT ATTTTTTACT TAGAGAAGTC AACCTGGATT ATCTTAGGCA
  GTNCAATAAG AATGCAAACA TTTCATATTT TATTCCCTAT AAGGGGNAAA AATGGAAGGA
  GGAAGAAAAC ACAGCAATTA CCACAAAACC AGTCAGGGTC CCCGCTGGCC ACACAAGGAC
  GAGCCTTTGG GAAGGAGAAA TTCAATCCTA CTTTGATGGG AAAAACAGCA ACTTTCACCA
  M
  TAATTACCAT ACAAAAGCAT AGTGGTTACA CAACTAAATG TTGAAGTCAA CCTCATCCAC
  AACGTCCCAA GTGCGGCTGA GGGAAAGCCA CGGGGCGTAC CTTTGGAGGG TCCCACTGGC
  CACAACGCCC CTCTGGACGC GTGGCCAGAG CCTTGCAGGG CCAAAGGAGG GGTTGGCAGT
  CGTCCCACGA CCAGGGCAGA AAGGGACTGC TTCCTGGGAC ACACAGGTGA AGCGACACCA
  CCAGGTGGCT                                                       
  
  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	C57BL/6J	CZECHII/EiJ
ss8809692	WI_WGS_2_71839739	WI	MOUSE	f	SNP	C	A
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6403489					SNP	C	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:70885614 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11734	CpG island 11734			77 bp proximal
Dcaf17	DDB1 and CUL4 associated factor 17			58 bp upstream
Mettl8	methyltransferase 8, methylcytidine			Intron
				Noncoding-Transcript-Variant
Rr397032	regulatory region 397032			243 bp upstream
Rr558662	regulatory region 558662			within coordinates
Rr558663	regulatory region 558663			292 bp proximal
Rr558664	regulatory region 558664			467 bp proximal
Rr558665	regulatory region 558665			994 bp proximal
Tssr18237	transcription start site region 18237			461 bp upstream
Tssr24467	transcription start site region 24467			234 bp downstream
Tssr24468	transcription start site region 24468			246 bp downstream
Tssr24469	transcription start site region 24469			264 bp downstream