AminoSee DNA Render Summary for Caenorhabdihromosome-V

AmberTryptophanMethionineOpalOchreAspartic acidHistidineCysteineTyrosineGlycineProlineAlanineGlutamineGlutamic acidValineThreonineAsparagineArginineIsoleucineLysineSerinePhenylalanineLeucine

  Filename: Caenorhabdihromosome-V
  Highlights: Leucine
  Your custom flags: fix   
  Science Mode
  Aspect Ratio: fix
  Input bytes: 21,272,974
  Output bytes: 13,949,452
  Estimated Codons by file size: 7,090,991
  Actual Codons matched: 6,974,726
  Estimate accuracy: 2%
  Error Clock: 53
  CharClock: 20,924,238
  Codons per pixel: 1.69 integer
  Pixels: 3,487,363 (colClock)
  Linear scale down:  3.33
  overSampleFactor: 1
  Shrink Factor: 3.33
  Amino acid blend opacity: 59.15%
  Users Max magnitude: Not Set Max pix:1,048,576
  Hilbert Magnitude: false / 8
  Hilbert Curve Pixels: 1048576
  Darken Factor 1
  Highlight Factor 1.85
  Time used: 34,707 miliseconds

1D Linear Map Image

2D Hilbert Map Image

3D Hilbert Map Image

AminoSeeNoEvil

DNA/RNA Chromosome Viewer

A new way to view DNA that attributes a colour hue to each Amino acid codon triplet



Amino Acid Hue RGB Count Description Hilbert PNG
Non-coding NNN

120°

128,255,128

0 Expressed as NNN Codon Non-codingNNN
Start Codons

120°

128,255,128

0 Count of Methionine StartCodons
Stop Codons

120°

128,255,128

0 One of Opal, Ochre, or Amber StopCodons
Amber

47°

255,227,128

73,354 STOP Codon Amber
Tryptophan

188°

128,238,255

87,331 Group I: Nonpolar amino acids Tryptophan
Methionine

110°

149,255,128

112,449 START Codon Methionine
Opal

240°

128,128,255

149,231 STOP Codon Opal
Ochre

255,128,128

151,217 STOP Codon Ochre
Aspartic acid

31°

255,193,128

168,439 Group III: Acidic amino acids Asparticacid
Histidine

329°

255,128,193

186,335 Group IV: Basic amino acids Histidine
Cysteine

63°

249,255,128

200,613 Group II: Polar, uncharged amino acids Cysteine
Tyrosine

282°

217,128,255

223,115 Group II: Polar, uncharged amino acids Tyrosine
Glycine

78°

217,255,128

229,888 Group I: Nonpolar amino acids Glycine
Proline

344°

255,128,162

231,623 Group I: Nonpolar amino acids Proline
Alanine

94°

183,255,128

233,338 Group I: Nonpolar amino acids Alanine
Glutamine

250°

149,128,255

250,224 Group II: Polar, uncharged amino acids Glutamine
Glutamic acid

16°

255,162,128

263,662 Group III: Acidic amino acids Glutamicacid
Valine

125°

128,255,138

340,531 Group I: Nonpolar amino acids Valine
Threonine

219°

128,172,255

341,506 Group II: Polar, uncharged amino acids Threonine
Asparagine

266°

183,128,255

387,654 Group II: Polar, uncharged amino acids Asparagine
Arginine

297°

249,128,255

393,284 Group IV: Basic amino acids Arginine
Isoleucine

157°

128,255,206

509,892 Group I: Nonpolar amino acids Isoleucine
Lysine

313°

255,128,227

546,187 Group IV: Basic amino acids Lysine
Serine

203°

128,206,255

606,032 Group II: Polar, uncharged amino acids Serine
Phenylalanine

172°

128,255,238

612,098 Group I: Nonpolar amino acids Phenylalanine
Leucine

141°

128,255,172

676,723 Group I: Nonpolar amino acids Leucine
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

About Start and Stop Codons

The codon AUG is called the START codon as it the first codon in the transcribed mRNA that undergoes translation. AUG is the most common START codon and it codes for the amino acid methionine (Met) in eukaryotes and formyl methionine (fMet) in prokaryotes. During protein synthesis, the tRNA recognizes the START codon AUG with the help of some initiation factors and starts translation of mRNA. Some alternative START codons are found in both eukaryotes and prokaryotes. Alternate codons usually code for amino acids other than methionine, but when they act as START codons they code for Met due to the use of a separate initiator tRNA. Non-AUG START codons are rarely found in eukaryotic genomes. Apart from the usual Met codon, mammalian cells can also START translation with the amino acid leucine with the help of a leucyl-tRNA decoding the CUG codon. Mitochondrial genomes use AUA and AUU in humans and GUG and UUG in prokaryotes as alternate START codons. In prokaryotes, E. coli is found to use AUG 83%, GUG 14%, and UUG 3% as START codons. The lacA and lacI coding regions in the E coli lac operon don’t have AUG START codon and instead use UUG and GUG as initiation codons respectively.

Linear Projection

The following image is in raster order, top left to bottom right: