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Table 1 List of genes found in C. japonica chloroplast genome (see Figure 1)

From: Complete nucleotide sequence of the Cryptomeria japonicaD. Don. chloroplast genome and comparative chloroplast genomics: diversified genomic structure of coniferous species

Category for genes

Group of gene

Name of gene

Self replication

Ribosomal RNA genes

rrn 16

rrn 23

rrn 5

rrn 4.5

  
 

Transfer RNA genes

trn A-UGC *

trn C-GCA

trn D-GUC

trn E-UUC

trn F-GAA

trnf M-CAU

  

trn G-GCC

trn G-UCC *

trn H-GUG

trn I-CAU × 2

trn I-GAU *

trn K-UUU *

  

trn L-CAA

trn L-UAA *

trn L-UAG

trn M-CAU

trn N-GUU

trn P-GGG

  

trn P-UGG

trn Q-UUG × 2

trn R-ACG

trn R-UCU

trn S-GCU

trn S-UGA

  

trn S-GGA

trn T-UGU

trn V-GAC

trn V-UAC *

trn W-CCA

trn Y-GUA

 

Small subunit of ribosome

rps 2

rps 3

rps 4

rps 7

rps 8

rps 11

  

rps 12*

rps 14

rps 15

rps 16 *

rps 18

rps 19

 

Large subunit of ribosome

rpl 2 *

rpl 14

rpl 16 *

rpl 20

rpl 22

rpl 23

  

rpl 32

rpl 33

rpl 36

   
 

DNA dependent RNA polymerase

rpo A

rpo B

rpo C1 *

rpo C2

  
 

Translational initiation factor

inf A

     

Genes for photosynthesis

Subunits of photosystem I

psa A

psa B

psa C

psa I

psa J

psa M

 

Subunits of photosystem II

psb A

psb B

psb C

psb D

psb E

psb F

  

psb H

psb I

psb J

psb K

psb L

psb M

  

psb N

psb T

psbZ

   
 

Subunits of Cytochrome

pet A

pet B *

pet D *

pet G

pet L

petN

 

Subunits of ATP synthase

atp A

atp B

atp E

atp F *

atp H

atp I

 

Large subunit of Rubisco

rbc L

     
 

Chlorophyll biosynthesis

chl B

chl N

chl L

   
 

Subunits of NADH dehydrogenase

ndh A*

ndh B *

ndh C

ndh D

ndh E

ndh F

  

ndh G

ndh H

ndh I

ndh J

ndh K

 

Other genes

Maturase

mat K

     
 

Envelop membrane protein

cemA

     
 

Subunit of Acetyl-CoA-carboxylase

accD

     
 

c-type cytochrome synthesis gene

ccsA

     

Genes of Unknown function

Conserved Open Reading Frames

ycf 1

ycf 2

ycf 3 *

ycf 4

  

Pseudogenes

Pseudogene

Pseudo-clpP

Pseudo-trn T-GGU

 

Pseudo-ycf 68

  
  1. * Genes containing introns.