Accession number : GenBank U02970
Special sequence features :
Presumably 2 transcription units.
Intergenic regions 100-150 nt long, except 2 regions 1 and 2 kbp in length.
A+T content = 74.2%
Ribosomal RNA genes (3 in total)
rns (small subunit), rnl (large subunit), rrn5 (5S)
Transfer RNA genes (26 in total)
trnA,C,D,E,F,G1,G2,H,I1,I2,K,L1,L2,M1,M2,N,P,Q,R1,R2,S1,S2,T,V,W,Y
Ribosomal protein genes (13 in total)
Small subunit: rps2,3,4,7,10,11,12,13,14,19
Large subunit: rpl5,6,16
Genes for proteins involved in electron transport and oxidative phosphorylation (16 in total)
nad1,2,3,4,4L,5,6,7,9, cob, cox1,2,3, atp1,6,9
Genes similar to ORFs of unknown function from other organisms (3 in total)
orf234.1 = Marchantia mitochondrial orf244
orf234.2 = Marchantia mitochondrial orf172, angiosperm mitochondrial orfB, Rhosospirillum atpx
orf183 = Marchantia mitochondrial orf183, angiosperm mitochondrial orf25
Unique ORFs (2 in total)
orf174, orf304
Codon usage
Codon usage deduced from all protein-coding genes and intronic reading
frames except the 2 unique ORFs (orf174 and orf304).
Codons are shown in uppercase, anticodons in lowercase; *, termination codon; x, codon not used.
(%) denotes proportional codon usage for each amino acid.
______________________________________________________________________________TTT F gaa 471 78% TCT S uga 283 39% TAT Y gua 370 90% TGT C gca 117 89% TTC F " 133 22% TCC S " 4 1% TAC Y " 43 10% TGC C " 14 11% TTA L uaa 786 76% TCA S " 176 24% TAA ter * 32 100% TGA x - 0 0% TTG L " 25 2% TCG S " 17 2% TAG ter * 0 0% TGG W cca 112 100%
CTT L uag 156 15% CCT P ugg 174 56% CAT H gug 144 83% CGT R acg 130 40% CTC L " 3 0% CCC P " 6 2% CAC H " 29 17% CGC R " 19 6% CTA L " 60 6% CCA P " 122 39% CAA Q uug 285 93% CGA R " 43 13% CTG L " 10 1% CCG P " 7 2% CAG Q " 23 7% CGG x - 0 0%
ATT I gau 396 52% ACT T ugu 224 53% AAT N guu 351 85% AGT S gcu 211 29% ATC I " 56 7% ACC T " 6 1% AAC N " 60 15% AGC S " 40 5% ATA I cau 309 41% ACA T " 177 42% AAA K uuu 512 96% AGA R ucu 128 40% ATG M cau 212 100% ACG T " 16 4% AAG K " 20 4% AGG R " 2 1%
GTT V uac 231 39% GCT A ugc 299 53% GAT D guc 241 88% GGT G gcc 250 52% GTC V " 2 0% GCC A " 13 2% GAC D " 32 12% GGC G " 22 5% GTA V " 339 57% GCA A " 232 41% GAA E uuc 278 93% GGA G ucc 192 40% GTG V " 24 4% GCG A " 21 4% GAG E " 22 7% GGG G " 16 3% ______________________________________________________________________________
Further tRNA features
- 13 non-Watson-Crick pairs.
- unusual nucleotides in positions U8, G10, A21, R26, G/C-pair 28:42.
- bulge nucleotide in the D-stem of tRNA W.