plastid.txt
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UniProt - Swiss-Prot Protein Knowledgebase
Swiss Institute of Bioinformatics (SIB); Geneva, Switzerland
European Bioinformatics Institute (EBI); Hinxton, United Kingdom
Protein Information Resource (PIR); Washington DC, USA
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Description: Nomenclature of plastid-encoded proteins
Name: plastid.txt
Release: 57.14 of 09-Feb-2010
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The nomenclature listed below is based on the following references:
[ 1] Hallick R.B., Bottomley W.
Proposals for the naming of chloroplast genes.
Plant Mol. Biol. Rep. 1:38-43(1983).
[ 2] Hallick R.B.
Proposals for the naming of chloroplast genes. II. Update to the
nomenclature of genes for thylakoid membrane polypeptides.
Plant Mol. Biol. Report. 7:266-275(1989).
[ 3] Hallick R.B., Bairoch A.
Proposals for the naming of chloroplast genes. III. Nomenclature for
open reading frames encoded in chloroplast genomes.
Plant Mol. Biol. Report. 12:S29-S30(1994).
[ 4] Stoebe B., Martin W., Kowallik K.V.
Distribution and nomenclature of protein-coding genes in 12 sequenced
chloroplast genomes.
Plant Mol. Biol. Report. 16:243(1998).
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Table of the protein coding genes that are known to exist in at least one
plant or algal species in the plastid genome, with the exception of genes
encoded in the plastid of Paulinella chromatophora.
_____ _______________________________________________________ _________________
Gene Gene name
name Short description of protein synonyms
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accA Acetyl-CoA carboxylase carboxyl transferase alpha
accB Acetyl-CoA carboxylase biotin carrier protein
accD Acetyl-CoA carboxylase carboxyl transferase beta ycf11; dedB; zfpA
acpP Acyl carrier protein acpA; acp
acsF Mg-protoporphyrin IX monomethyl ester oxidative cyclase ycf59
apcA Allophycocyanin (APC) alpha chain
apcB Allophycocyanin (APC) beta chain
apcD Allophycocyanin (APC) alpha-B (gamma) chain
apcE Phycobilisome linker polypeptide
apcF Allophycocyanin (APC) B18 chain
argB Acetylglutamate kinase
atpA ATP synthase CF1 alpha chain
atpB ATP synthase CF1 beta chain
atpD ATP synthase CF1 delta chain
atpE ATP synthase CF1 epsilon chain
atpF ATP synthase CF0 B chain (subunit I)
atpG ATP synthase CF0 B' chain (subunit II)
atpH ATP synthase CF0 C chain (subunit III)
atpI ATP synthase CF0 A chain (subunit IV)
carA Carbamoyl phosphate synthetase small subunit
ccs1 Cytochrome c biogenesis protein ccs1 ccsB; ycf44
ccsA Cytochrome c biogenesis protein ycf5
cemA Chloroplast envelope protein hbp; ycf10
cfxQ CfxQ protein homolog
chlB Protochlorophyllide reductase chlB chain
chlI Magnesium-chelatase subunit ccsA
chlL Iron-sulfur ATP-binding protein frxC; gidB
chlN Protochlorophyllide reductase chlN chain gidA
clpC ATP-dependent clp protease ATP-binding subunit
clpP clpP-like protease
cobA Uroporphyrin-III C-methyltransferase
cpcA Phycocyanin (PC) alpha chain pcyA
cpcB Phycocyanin (PC) beta chain pcyB
cpcG Phycobilisome rod-core linker polypeptide cpcC
cpeA Phycoerythrin (PE) alpha chain rpeA
cpeB Phycoerythrin (PE) beta chain rpeB
crtE Geranylgeranyl pyrophosphate synthetase ggps1
cysA Sulfate transport system ATP-binding protein mbpX
cysT Sulfate transport system permease protein cysT mbpY
cysW Sulfate transport system permease protein cysW
dnaB DNA replication helicase
dnaK Hsp70-type chaperone hsp70; ctp70
fabH 3-oxoacyl-[acyl-carrier-protein] synthase III
ftrB Ferredoxin-thioredoxin reductase beta subunit
ftsH Cell division protein ftsH homolog ycf25
ftsI Peptidoglycan synthetase ftsI homolog
ftsW Cell division protein ftsW homolog
glmS Glucosamine--fructose-6-phosphate aminotransferase
glnB Regulator of glutamine synthetase
gltB Glutamate synthase glsF
groL 60 kDa chaperonin groEL; cpn60
groS 10 kDa chaperonin groES; cpn10
hemA Glutamyl-tRNA reductase
hisH Amidotransferase hisH
hisS Histidyl-tRNA synthetase syh
hup DNA-binding protein Hu homolog hlpA; hcfC; hlp
ilvB Acetolactate synthase large subunit
ilvH Acetolactate synthase small subunit
infA Initiation factor 1
infB Initiation factor 2
infC Initiation factor 3
lipB Lipoate-protein ligase B
lpxA Acyl-[ACP]--UDP-N-acetylglucosamine O-acyltransferase
lpxC UDP-3-O-[3-hydroxymyristoyl] GlcNac deacetylase
mat1 Maturase-like protein 1 ycf13
mat2 Maturase-like protein 2
matK Probable intron maturase ycf14
menB Naphthoate synthase
minD Septum site-determining protein
minE Cell division topological specificity factor
moeB Probable molybdopterin biosynthesis protein moeB
nadA Quinolinate synthetase A
ndhA NADH-plastoquinone oxidoreductase chain 1 ndh1
ndhB NADH-plastoquinone oxidoreductase chain 2 ndh2
ndhC NADH-plastoquinone oxidoreductase chain 3 ndh3
ndhD NADH-plastoquinone oxidoreductase chain 4 ndh4
ndhE NADH-plastoquinone oxidoreductase chain 4L ndh4L
ndhF NADH-plastoquinone oxidoreductase chain 5 ndh5
ndhG NADH-plastoquinone oxidoreductase chain 6 ndh6
ndhH NADH-plastoquinone oxidoreductase 49 kDa subunit
ndhI NADH-plastoquinone oxidoreductase subunit I frxB
ndhJ NADH-plastoquinone oxidoreductase subunit J
ndhK NADH-plastoquinone oxidoreductase subunit K psbG
pbsA Heme oxygenase
pdhA Pyruvate dehydrogenase e1 component, alpha subunit odpA
pdhB Pyruvate dehydrogenase e1 component, beta subunit odpB
petA Cytochrome f
petB Cytochrome b6
petD Cytochrome b6-f complex subunit IV
petF Ferredoxin
petG Cytochrome b6-f complex subunit V
petJ Cytochrome c553 (cytochrome C6)
petL Cytochrome b6-f complex subunit VI ycf7
petM Cytochrome b6-f complex subunit VII ycf31
petN Cytochrome b6-f complex subunit VIII ycf6
pgmA 2,3-P-glycerate-independent phosphoglycerate mutase
pheT Phenylalanine tRNA synthetase beta subunit
preA Prenyl transferase
psaA Photosystem I p700 chlorophyll A apoprotein A1 psaA1
psaB Photosystem I p700 chlorophyll A apoprotein A2 psaA2
psaC Photosystem I iron-sulfur center (subunit VII) frxA
psaD Photosystem I reaction center subunit II
psaE Photosystem I reaction center subunit IV
psaF Photosystem I reaction center subunit III
psaI Photosystem I reaction center subunit VIII
psaJ Photosystem I reaction center subunit IX
psaK Photosystem I reaction center subunit X
psaL Photosystem I reaction center subunit XI
psaM Photosystem I reaction center subunit M
psbA Photosystem II Q(b) protein (D1)
psbB Photosystem II p680 chlorophyll A apoprotein (CP-47)
psbC Photosystem II 44 kDa apoprotein (P6)
psbD Photosystem II D2 protein
psbE Cytochrome b559 alpha chain
psbF Cytochrome b559 beta chain
psbH Photosystem II 10 kDa phosphoprotein
psbI Photosystem II protein I
psbJ Photosystem II protein J
psbK Photosystem II protein K
psbL Photosystem II protein L
psbM Photosystem II protein M
psbN Photosystem II protein N
psbT Photosystem II protein T ycf8
psbV Cytochrome c550
psb28 Photosystem II protein psb28 ycf79; psbW
psbX Photosystem II protein X
psbY Photosystem II protein Y ycf32
psbZ Photosystem II protein Z ycf9
rbcL Ribulose bisphosphate carboxylase large chain rbcA
rbcR Probable RuBisCO transcriptional regulator ycf30; trsE
rbcS Ribulose bisphosphate carboxylase small chain
rne Ribonuclease E
roaA Ribosomal operon-associated A ycf82
rpl1 50S ribosomal protein L1
rpl2 50S ribosomal protein L2
rpl3 50S ribosomal protein L3
rpl4 50S ribosomal protein L4
rpl5 50S ribosomal protein L5
rpl6 50S ribosomal protein L6
rpl9 50S ribosomal protein L9
rpl11 50S ribosomal protein L11
rpl12 50S ribosomal protein L12
rpl13 50S ribosomal protein L13
rpl14 50S ribosomal protein L14
rpl16 50S ribosomal protein L16
rpl18 50S ribosomal protein L18
rpl19 50S ribosomal protein L19
rpl20 50S ribosomal protein L20
rpl21 50S ribosomal protein L21
rpl22 50S ribosomal protein L22
rpl23 50S ribosomal protein L23
rpl24 50S ribosomal protein L24
rpl27 50S ribosomal protein L27
rpl28 50S ribosomal protein L28
rpl29 50S ribosomal protein L29
rpl31 50S ribosomal protein L31
rpl32 50S ribosomal protein L32
rpl33 50S ribosomal protein L33
rpl34 50S ribosomal protein L34
rpl35 50S ribosomal protein L35
rpl36 50S ribosomal protein L36 secX
rpoA DNA-directed RNA polymerase alpha chain
rpoB DNA-directed RNA polymerase beta chain
rpoC1 DNA-directed RNA polymerase beta' chain
rpoC2 DNA-directed RNA polymerase beta" chain
rpoZ DNA-directed RNA polymerase omega chain ycf61
rps1 30S ribosomal protein S1
rps2 30S ribosomal protein S2
rps3 30S ribosomal protein S3
rps4 30S ribosomal protein S4
rps5 30S ribosomal protein S5
rps6 30S ribosomal protein S6
rps7 30S ribosomal protein S7
rps8 30S ribosomal protein S8
rps9 30S ribosomal protein S9
rps10 30S ribosomal protein S10
rps11 30S ribosomal protein S11
rps12 30S ribosomal protein S12
rps13 30S ribosomal protein S13
rps14 30S ribosomal protein S14
rps15 30S ribosomal protein S15
rps16 30S ribosomal protein S16
rps17 30S ribosomal protein S17
rps18 30S ribosomal protein S18
rps19 30S ribosomal protein S19
rps20 30S ribosomal protein S20
secA Preprotein translocase subunit secA
secG Probable protein-export membrane protein secG ycf47
secY Preprotein translocase subunit secY
sepF Cell division protein sepF homolog ycf50
thiG Thiamine biosynthesis protein G
tilS tRNA(Ile)-lysidine synthase ycf62
trmE tRNA modification GTPase trmE thdH
trpA Tryptophan synthase alpha chain
trpG Anthranilate synthase component II
trxA Thioredoxin trx; trxM
tsf Elongation factor Ts
tufA Elongation factor Tu
upp Uracil phosphoribosyltransferase
ycf3 Photosystem I assembly protein ycf3.
ycf4 Photosystem I assembly protein ycf4.
ycf65 Probable plastid-specific 30S ribosomal protein 3
ycf1 Large ORF (about 1700 to 1900 residues)
ycf2 Large ORF (about 2200 residues)
ycf12 ORF of 33 to 34 residues
ycf15 ORF of 63 to 99 residues
ycf16 ABC transporter protein in ATPase operon
ycf17 ELIP-like protein
ycf18 ORF of 57 to 62 residues nblA
ycf19 ORF of 91 to 98 residues
ycf20 ORF of 64 to 116 residues
ycf21 ORF of 175 to 193 residues
ycf22 ORF of 198 to 209 residues
ycf23 ORF of 243 to 277 residues
ycf24 Belongs to UPF0051 family
ycf26 Sensory transduction histidine kinase-like protein
ycf27 ompR-like protein ompR
ycf28 crp-like protein
ycf29 ompR-like protein
ycf33 ORF of 64 to 67 residues
ycf34 ORF of 76 to 77 residues
ycf35 ORF of 128 residues
ycf36 ORF of 155 to 165 residues
ycf37 ORF of 172 to 178 residues
ycf38 ORF of 290 to 291 residues
ycf39 ORF of 314 to 321 residues
ycf40 ORF of 71 to 73 residues
ycf41 ORF of 111 to 113 residues
ycf42 ORF of 199 to 204 residues
ycf43 ORF of 239 to 263 residues
ycf45 ORF of 455 to 565 residues
ycf46 ORF of 491 to 497 residues
ycf48 ORF of 333 residues
ycf49 ORF of 102 to 104 residues
ycf51 ORF of 163 residues
ycf52 ORF of 174 residues
ycf53 ORF of 237 to 238 residues
ycf54 ORF of 103 to 108 residues
ycf55 ORF of 320 residues
ycf56 Belongs to the atsA/elaC family
ycf58 ORF of 139 to 200 residues
ycf60 ORF of 197 to 204 residues
ycf63 ORF of 263 residues
ycf64 Putative monothiol glutaredoxin
ycf66 ORF of 99 to 170 residues
ycf68 ORF of 75 to 134 residues
ycf70 ORF of 42 to 89 residues
ycf72 ORF of 132 residues
ycf73 ORF of 173 to 249 residues
ycf80 ORF of 282 to 450 residues
ycf81 ORF of 138 to 382 residues
ycf83 Belongs to the hesB family ycf57
ycf88 ORF of 148 residues
ycf89 ORF of 355 residues
ycf90 ORF of 380 residues
ycf91 ORF of 121 to 127 residues
ycf92 ORF of 245 to 287 residues
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Table of the occurrence of the genes
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Gene
Name Occurrence
_____ ____________________________________________________________________
accA In C.caldarium; P.purpurea; Antithamnion sp.
accB In C.caldarium; P.purpurea
accD Ubiquitous; but not in E.gracilis; C.paradoxa; G.theta; O.sinensis
acpP In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium;
Cylindrotheca sp.
acsF In C.caldarium; C.merolae; P.purpurea
apcA In A.neglectum; C.paradoxa; C.caldarium; P.purpurea
apcB In A.neglectum; C.paradoxa; C.caldarium; P.purpurea
apcD In C.paradoxa; C.caldarium; P.purpurea
apcE In A.neglectum; C.paradoxa; C.caldarium; P.purpurea
apcF In A.neglectum; C.paradoxa; C.caldarium; P.purpurea
argB In C.caldarium; P.purpurea; P.umbilicalis
atpA Ubiquitous; but not in E.virginiana
atpB Ubiquitous; but not in E.virginiana
atpD In C.paradoxa; G.theta; O.sinensis; P.purpurea; Antithamnion sp.;
C.caldarium; O.neapolitana
atpE Ubiquitous; but not in E.virginiana
atpF Ubiquitous; but not in E.virginiana
atpG In C.paradoxa; G.theta; O.sinensis; P.purpurea; Antithamnion sp.;
C.caldarium; O.neapolitana; D.dichotoma
atpH Ubiquitous; but not in E.virginiana
atpI Ubiquitous; but not in E.virginiana; C.paradoxa
carA In C.caldarium; P.purpurea
ccs1 In G.theta; O.sinensis; P.purpurea
ccsA Ubiquitous; but not in E.virginiana; E.gracilis
cemA Ubiquitous; but not in E.virginiana; E.gracilis; C.paradoxa;
O.sinensis
cfxQ In G.theta; O.sinensis; P.purpurea; C.merolae; C.caldarium
chlB In C.reinhardtii; C.moewusii; M.polymorpha; G.biloba; P.thunbergii;
P.purpurea; C.paradoxa; C.vulgaris; M.viride
chlI In E.gracilis; G.theta; P.purpurea; C.paradoxa; O.sinensis;
C.vulgaris; M.viride
chlL In C.reinhardtii; M.polymorpha; P.contorta; P.thunbergii; P.purpurea;
C.paradoxa; C.vulgaris; M.viride
chlN In C.reinhardtii; M.polymorpha; P.contorta; P.thunbergii; P.purpurea;
C.paradoxa; C.vulgaris; M.viride
clpC In C.caldarium; G.theta; O.sinensis; P.purpurea
clpP Ubiquitous; but not in E.gracilis; G.theta; O.sinensis; P.purpurea
cobA In C.caldarium
cpcA In A.neglectum; C.paradoxa; C.caldarium; P.purpurea; R.violacea
cpcB In A.neglectum; C.paradoxa; C.caldarium; P.purpurea; R.violacea
cpcG In A.neglectum; C.caldarium; P.purpurea
cpeA In A.neglectum; Polysiphonia boldii; P.cruentum; P.sordidum;
R.violacea; P.purpurea
cpeB In A.neglectum; G.theta; Polysiphonia boldii; P.cruentum; P.sordidum;
R.violacea; P.purpurea
crtE In C.paradoxa; P.purpurea
cysA In C.vulgaris; M.polymorpha; M.viride
cysT In C.vulgaris; M.polymorpha; M.viride
cysW In C.merolae
dnaB In G.theta; O.sinensis; P.purpurea
dnaK In C.caldarium; G.theta; O.sinensis; P.purpurea; P.lutherii;
P.umbilicalis; C.paradoxa
fabH In P.purpurea; P.umbilicalis
ftrB In C.caldarium; G.theta; P.purpurea
ftsH In C.caldarium; G.theta; O.sinensis; P.purpurea
ftsI In M.viride; N.olivacea
ftsW In C.paradoxa; M.viride
glmS In C.caldarium
glnB In C.caldarium; P.purpurea
gltB In C.caldarium; P.purpurea; Antithamnion sp.
groEL In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium; P.salina
groES In C.paradoxa
hemA In C.paradoxa
hisH In C.paradoxa; C.caldarium
hisS In P.purpurea
hup In G.theta
ilvB In C.caldarium; G.theta; P.purpurea; P.umbilicalis
ilvH In C.caldarium; G.theta; P.purpurea
infA Ubiquitous; but not in A.thaliana; E.gracilis; C.paradoxa; C.caldarium;
G.theta; O.sinensis; P.purpurea
infB In G.theta; P.purpurea; C.caldarium
infC In C.caldarium; P.purpurea
lipB In C.caldarium
lpxA In C.caldarium
lpxC In C.caldarium
mat1 In A.longa; E.gracilis
mat2 In E.gracilis
matK Ubiquitous; but not in E.gracilis; C.paradoxa; C.caldarium; G.theta;
O.sinensis; P.purpurea; C.vulgaris
menB In C.caldarium
minD In C.vulgaris; G.theta; M.viride
minE In C.vulgaris; G.theta
moeB In P.purpurea
nadA In C.paradoxa
ndhA Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhB Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhC Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhD Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhE Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhF Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhH Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhI Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhJ Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
ndhK Ubiquitous; but not in P.thunbergii; E.virginiana; C.paradoxa;
E.gracilis; G.theta; P.purpurea; O.sinensis; C.vulgaris
pbsA In G.theta; P.purpurea; R.violacea
pdhA In P.purpurea
pdhB In M.viride; P.purpurea
petA Ubiquitous; but not in E.virginiana; E.gracilis
petB Ubiquitous; but not in E.virginiana
petD Ubiquitous; but not in E.virginiana; E.gracilis
petF In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
petG Ubiquitous; but not in E.virginiana
petJ In C.caldarium; P.purpurea
petL Ubiquitous; but not in E.virginiana; E.gracilis
petM In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
petN Ubiquitous; but not in E.virginiana; E.gracilis
pgmA In P.purpurea; Antithamnion sp.
pheT In P.purpurea
preA In C.paradoxa; C.caldarium; P.purpurea
psaA Ubiquitous; but not in E.virginiana
psaB Ubiquitous; but not in E.virginiana
psaC Ubiquitous; but not in E.virginiana
psaD In C.caldarium; G.theta; O.sinensis; P.purpurea
psaE In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea;
P.umbilicalis
psaF In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
psaI Ubiquitous; but not in E.virginiana; E.gracilis
psaJ Ubiquitous; but not in E.virginiana
psaK In C.caldarium; G.theta; P.purpurea
psaL In G.theta; O.sinensis; P.purpurea
psaM In M.polymorpha; P.thunbergii; C.paradoxa; C.caldarium; G.theta;
M.viride; O.sinensis; P.purpurea; E.gracilis; C.vulgaris
psbA Ubiquitous; but not in E.virginiana
psbB Ubiquitous; but not in E.virginiana
psbC Ubiquitous; but not in E.virginiana
psbD Ubiquitous; but not in E.virginiana
psbE Ubiquitous; but not in E.virginiana
psbF Ubiquitous; but not in E.virginiana
psbH Ubiquitous; but not in E.virginiana
psbI Ubiquitous; but not in E.virginiana; P.purpurea
psbJ Ubiquitous; but not in E.virginiana
psbK Ubiquitous; but not in E.virginiana
psbL Ubiquitous; but not in E.virginiana
psbM Ubiquitous; but not in E.virginiana; E.gracilis; G.theta; O.sinensis;
P.purpurea
psbN Ubiquitous; but not in E.virginiana
psbT Ubiquitous; but not in E.virginiana
psbV In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
psbW In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
psbX In C.paradoxa; G.theta; O.sinensis; P.purpurea
psbY In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea
psbZ Ubiquitous; but not in E.virginiana
rbcL Ubiquitous; but not in E.virginiana
rbcR In C.paradoxa; G.theta; O.sinensis; P.purpurea
rbcS In C.paradoxa; G.theta; O.sinensis; P.purpurea; Antithamnion sp.;
C.caldarium; Cylindrotheca sp.; E.siliculosus; O.luteus; P.littoralis
rne In G.theta; P.purpurea
roaA In A.longa; E.gracilis
rpl1 In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium
rpl2 Ubiquitous
rpl3 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rpl4 In G.theta; O.sinensis; P.purpurea
rpl5 In A.longa; E.gracilis; C.paradoxa; G.theta; P.purpurea; O.sinensis;
C.vulgaris
rpl6 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rpl9 In P.purpurea
rpl11 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rpl12 In C.paradoxa; G.theta; O.sinensis; P.purpurea; E.gracilis; C.vulgaris
rpl13 In G.theta; O.sinensis; P.purpurea
rpl14 Ubiquitous; but not in E.virginiana
rpl16 Ubiquitous
rpl18 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rpl19 In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea;
C.vulgaris
rpl20 Ubiquitous
rpl21 In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea;
M.polymorpha
rpl22 Ubiquitous; but not in E.virginiana; Pisum sativum; C.vulgaris
rpl23 Ubiquitous; but not in E.virginiana; C.paradoxa
rpl24 In G.theta; O.sinensis; P.purpurea
rpl27 In C.caldarium; G.theta; O.sinensis; P.purpurea; C.hirta; P.carterae;
P.haptonemofera; P.cruentum
rpl28 In C.paradoxa; P.purpurea
rpl29 In G.theta; O.sinensis; P.purpurea
rpl31 In G.theta; O.sinensis; P.purpurea
rpl32 Ubiquitous; but not in E.virginiana; C.paradoxa
rpl33 Ubiquitous; but not in E.gracilis; C.vulgaris
rpl34 In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea; O.luteus
rpl35 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rpl36 Ubiquitous
rpoA Ubiquitous; but not in E.virginiana; E.gracilis
rpoB Ubiquitous; but not in E.virginiana
rpoC1 Ubiquitous; but not in E.virginiana
rpoC2 Ubiquitous; but not in E.virginiana
rpoZ In C.caldarium; G.theta; P.purpurea; M.viride
rps1 In P.purpurea
rps2 Ubiquitous
rps3 Ubiquitous
rps4 Ubiquitous
rps5 In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium
rps6 In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium
rps7 Ubiquitous
rps8 Ubiquitous
rps9 In C.paradoxa; G.theta; O.sinensis; P.purpurea; E.gracilis; C.vulgaris
rps10 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rps11 Ubiquitous
rps12 Ubiquitous
rps13 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rps14 Ubiquitous
rps15 Ubiquitous; but not in E.virginiana; C.paradoxa; E.gracilis;
G.theta; O.sinensis; P.purpurea; C.vulgaris
rps16 Ubiquitous; but not in M.polymorpha; E.virginiana; E.gracilis;
P.thunbergii; C.vulgaris
rps17 In C.paradoxa; G.theta; O.sinensis; P.purpurea
rps18 Ubiquitous
rps19 Ubiquitous
rps20 In C.paradoxa; G.theta; O.sinensis; P.purpurea
secA In C.caldarium; G.theta; O.sinensis; P.purpurea; Antithamnion sp.;
P.lutherii
secG In G.theta; O.sinensis; P.purpurea
secY In C.paradoxa; C.caldarium; G.theta; O.sinensis; P.purpurea;
Antithamnion sp.; P.lutherii; P.salina
sepF In C.paradoxa
thiG In C.caldarium; P.purpurea; O.sinensis
tilS In C.vulgaris; P.purpura; M.viride
trmE In C.caldarium
trpA In Antithamnion sp.; C.caldarium; P.purpurea; C.merolae
trpG In C.caldarium; C.paradoxa; P.purpurea
trxA In C.caldarium; P.purpurea; C.merolae
tsf In C.caldarium; G.theta; P.purpurea; Antithamnion sp.
tufA In A.longa; C.reinhardtii; C.orbicularis; G.theta; E.gracilis;
C.paradoxa; M.viride; P.purpurea; O.sinensis; C.vulgaris
upp In P.purpurea
ycf1 In A.thaliana; E.virginiana; M.polymorpha; Tobacco; O.bertiana;
P.thunbergii
ycf2 In A.thaliana; E.virginiana; M.polymorpha; Tobacco; Spinach;
Vicia faba; P.thunbergii; O.bertiana; M.viride
ycf3 Ubiquitous; but not in E.virginiana; E.gracilis
ycf4 Ubiquitous; but not in E.virginiana
ycf12 In M.polymorpha; C.paradoxa; E.gracilis; P.thunbergii; G.theta;
O.sinensis; C.vulgaris; M.viride
ycf15 In A.thaliana; Tobacco; Spinach; Maize; O.bertiana; C.reflexa
ycf16 In C.paradoxa; G.theta; O.sinensis; P.purpurea; Antithamnion sp.;
C.caldarium
ycf17 In C.paradoxa; G.theta; P.purpurea; C.caldarium
ycf18 In P.purpurea; Aglaothamnion sp.; C.caldarium
ycf19 In P.purpurea; G.theta; C.caldarium
ycf20 In P.purpurea; G.theta; Aglaothamnion sp.; C.caldarium; M.viride
ycf21 In Antithamnion sp.; C.paradoxa; P.purpurea
ycf22 In Antithamnion sp.; P.purpurea
ycf23 In Antithamnion sp.; C.paradoxa; P.purpurea
ycf24 In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium;
Antithamnion sp.
ycf26 In P.purpurea
ycf27 In C.paradoxa; G.theta; O.sinensis; P.purpurea; C.caldarium;
P.aerugineum
ycf28 In P.purpurea
ycf29 In C.paradoxa; G.theta; P.purpurea
ycf33 In C.paradoxa; G.theta; O.sinensis; P.purpurea
ycf34 In C.paradoxa; P.purpurea
ycf35 In C.paradoxa; G.theta; O.sinensis; P.purpurea
ycf36 In C.paradoxa; G.theta; P.purpurea
ycf37 In C.paradoxa; G.theta; P.purpurea
ycf38 In C.paradoxa; P.purpurea
ycf39 In C.paradoxa; G.theta; O.sinensis; P.purpurea
ycf40 In P.purpurea; O.sinensis
ycf41 In P.purpurea; O.sinensis
ycf42 In P.purpurea; O.sinensis
ycf43 In C.caldarium; G.theta; O.sinensis; P.purpurea
ycf45 In P.purpurea; O.sinensis
ycf46 In G.theta; O.sinensis; P.purpurea
ycf48 In C.paradoxa
ycf49 In C.caldarium; C.paradoxa
ycf51 In C.paradoxa
ycf52 In P.purpurea
ycf53 In C.caldarium; P.purpurea
ycf54 In C.caldarium; P.purpurea
ycf55 In P.purpurea
ycf56 In P.purpurea
ycf58 In P.purpurea
ycf60 C.caldarium; P.purpurea
ycf63 In P.purpurea
ycf64 In P.purpurea
ycf65 In C.caldarium; G.theta; P.purpurea; M.viride
ycf66 In M.polymorpha; O.sinensis; M.viride
ycf68 In Maize; Rice; Pine
ycf70 In Maize; Rice; Wheat
ycf72 In Maize; Rice
ycf73 In Maize; Rice
ycf76 In Maize; Rice
ycf78 In C.reinhardtii; C.vulgaris
ycf80 In G.theta; P.purpurea
ycf81 In M.viride; N.olivacea
ycf83 In G.sulphuraria; P.purpurea
ycf88 In O.sinensis
ycf89 In O.sinensis
ycf90 In O.sinensis
ycf91 In P.purpurea
ycf92 In P.purpurea
--------------------------------
List of complete plastid genomes
--------------------------------
ACOAM Acorus americanus (Sweetflag) EMBL:EU273602
ACOCL Acorus calamus (Sweet flag) EMBL:AJ879453
ADICA Adiantum capillus-veneris (Fern) EMBL:AY178864
AETCO Aethionema cordifolium (Lebanon stonecress) EMBL:AP009366
AETGR Aethionema grandiflorum (Persian stone-cress) EMBL:AP009367
AGRST Agrostis stolonifera (Creeping bentgrass) EMBL:EF115543
AMBTC Amborella trichopoda. EMBL:AJ506156
ANEMR Aneura mirabilis (Parasitic liverwort) EMBL:EU043314
ANGEV Angiopteris evecta (Mule's foot fern) EMBL:DQ821119
ANTFO Anthoceros formosae (Hornwort) EMBL:AB086179
ARAHI Arabis hirsuta (Hairy rock-cress) EMBL:AP009369
ARATH Arabidopsis thaliana (Mouse-ear cress) EMBL:AP000423
ASTLO Astasia longa (Euglenophycean alga) EMBL:AJ294725
ATRBE Atropa belladonna (Belladonna) EMBL:AJ316582
BARVE Barbarea verna (Land cress) EMBL:AP009370
BIGNA Bigelowiella natans (Pedinomonas minutissima) EMBL:DQ851108
BRADI Brachypodium distachyon (Purple false brome) EMBL:EU325680
BUXMI Buxus microphylla (Little leaf boxwood) EMBL:EF380351
CALFG Calycanthus floridus var. glaucus EMBL:AJ428413
CAPBU Capsella bursa-pastoris (Shepherd's purse) EMBL:AP009371
CARPA Carica papaya (Papaya) EMBL:EU431223
CERDE Ceratophyllum demersum (Rigid hornwort) EMBL:EF614270
CHAGL Chaetosphaeridium globosum EMBL:AF494278
CHAVU Chara vulgaris EMBL:DQ229107
CHLAT Chlorokybus atmophyticus (Soil alga) EMBL:DQ422812
CHLRE Chlamydomonas reinhardtii EMBL:FJ423446, BK000554
CHLSC Chloranthus spicatus (Chulantree) EMBL:EF380352
CHLVU Chlorella vulgaris (Green alga) EMBL:AB001684
CICAR Cicer arietinum (Chickpea) (Garbanzo) EMBL:EU835853
CITSI Citrus sinensis (Sweet orange) EMBL:DQ864733
COFAR Coffea arabica (Coffee) EMBL:EF044213
CRUWA Crucihimalaya wallichii (Rock-cress) EMBL:AP009372
CRYJA Cryptomeria japonica (Japanese cedar) EMBL:AP009377
CUCSA Cucumis sativus (Cucumber) EMBL:AJ970307, EMBL:DQ119058, EMBL:DQ865975, EMBL:DQ865976
CUSEX Cuscuta exaltata (Tall dodder) EMBL:EU189132
CUSGR Cuscuta gronovii (Common dodder) EMBL:AM711639
CUSOB Cuscuta obtusiflora (Peruvian dodder) EMBL:EU189133
CUSRE Cuscuta reflexa (Southern Asian dodder) EMBL:AM711640
CYACA Cyanidium caldarium EMBL:AF022186
CYAME Cyanidioschyzon merolae (Red alga) EMBL:AB002583
CYAPA Cyanophora paradoxa EMBL:U30821
CYCTA Cycas taitungensis (Prince sago) EMBL:AP009339
DAUCA Daucus carota (Carrot) EMBL:DQ898156
DIOEL Dioscorea elephantipes (Elephant's foot) EMBL:EF380353
DRANE Draba nemorosa (Woodland whitlowgrass) EMBL:AP009373
DRIGR Drimys granadensis EMBL:DQ887676
EIMTE Eimeria tenella EMBL:AY217738
EMIHU Emiliania huxleyi EMBL:AY741371
EPHEU Ephedra equisetina (Ma huang, Joint-fir) EMBL:AP010819
EPIVI Epifagus virginiana (Beechdrops) EMBL:M81884
EUCGG Eucalyptus globulus sp. globulus (Tasmanian blue gum) EMBL:AY780259
EUGGR Euglena gracilis EMBL:X70810
FAGEA Fagopyrum esculentum subsp. ancestrale (Wild buckwheat) EMBL:EU254477
FESAR Festuca arundinacea (Tall fescue) EMBL:FJ466687
GNEPA Gnetum parvifolium EMBL:AP009569
GOSBA Gossypium barbadense (Sea-island cotton) EMBL:AP009123
GOSHI Gossypium hirsutum (Upland cotton) EMBL:DQ345959
GRATL Gracilaria tenuistipitata var. liui (Red alga) EMBL:AY673996
GUIAB Guizotia abyssinica (Niger) EMBL:EU549769
GUITH Guillardia theta (Cryptomonas phi) EMBL:AF041468
HELAN Helianthus annus (Common sunflower) EMBL:DQ383815
HELSJ Helicosporidium sp. subsp. Simulium jonesii EMBL:DQ398104
HETA2 Heterosigma akashiwo (strain NIES-293) EMBL:EU168190
HETA4 Heterosigma akashiwo (strain CCMP452) EMBL:EU168191
HORVU Hordeum vulgare (Barley) EMBL:EF115541
HUPLU Huperzia lucidula (Shining clubmoss) EMBL:AY660566
ILLOL Illicium oligandrum EMBL:EF380354
IPOPU Ipomoea purpurea (Common morning glory) EMBL:EU118126
JASNU Jasminum nudiflorum (Winter jasmine) EMBL:DQ673255
KETDA Keteleeria davidiana EMBL:AP010820
LACSA Lactuca sativa (Garden lettuce) EMBL:AP007232, EMBL:DQ383816
LEMMI Lemna minor (Common duckweed) EMBL:DQ400350
LEPTE Leptosira terrestris (Pleurastrum terrestre) EMBL:EF506945
LEPVR Lepidium virginicum (Virginia pepperweed) EMBL:AP009374
LIRTU Liriodendron tulipifera (Tuliptree) EMBL:DQ899947
LOBMA Lobularia maritima (Sweet alyssum) EMBL:AP009375
LOLPR Lolium perenne (Perennial ryegrass) EMBL:AM777385
LOTJA Lotus japonicus EMBL:AP002983
MAIZE Zea mays (Maize) EMBL:X86563
MANES Manihot esculenta (Cassava) (Manioc) EMBL:EU117376
MARPO Marchantia polymorpha (Liverwort) EMBL:X04465
MESVI Mesostigma viride EMBL:AF166114
MORIN Morus indica (Mulberry) EMBL:DQ226511
NANDO Nandina domestica (Heavenly bamboo) EMBL:DQ923117
NASOF Nasturtium officinale (Water-cress) EMBL:AP009376
NEPOL Nephroselmis olivacea EMBL:AF137379
NICSY Nicotiana sylvestris (Wood tobacco) EMBL:AB237912
NICTO Nicotiana tomentosiformis (Tobacco) EMBL:AB240139
NUPAD Nuphar advena (Common spatterdock) EMBL:DQ354691
NYMAL Nymphaea alba (White water-lily) EMBL:AJ627251
ODOSI Odontella sinensis (Marine centric diatom) EMBL:Z67753
OEDCA Oedogonium cardiacum (Filamentous green alga) EMBL:EU677193
OENAR Oenothera argillicola (Appalachian evening primrose) EMBL:EU262887
OENBI Oenothera biennis (German evening primrose) EMBL:EU262889
OENEH Oenothera elata sb. hookeri (Hooker's evening primrose) EMBL:AJ271079
OENGL Oenothera glazioviana (Large-flowered evening primrose) EMBL:EU262890
OENPA Oenothera parviflora (Small-flowered evening primrose) EMBL:EU262891
OLIPU Olimarabidopsis pumila (Dwarf rocket) EMBL:AP009368
OLTVI Oltmannsiellopsis viridis (Marine flagellate) EMBL:DQ291132
ORYNI Oryza nivara (Indian wild rice) EMBL:AP006728
ORYSA Oryza sativa (Rice) EMBL:AY522331
ORYSI Oryza sativa subsp. indica (Rice) EMBL:AY522329
ORYSJ Oryza sativa subsp. japonica (Rice) EMBL:X15901, EMBL:AY522330
OSTTA Ostreococcus tauri EMBL:CR954199
PANGI Panax ginseng (Korean ginseng) EMBL:AY582139
PELHO Pelargonium hortorum (Common geranium) EMBL:DQ897681
PHAAO Phalaenopsis aphrodite subsp. formosana (Moth orchid) EMBL:AY916449
PHATR Phaeodactylum tricornutum (Marine diatom) EMBL:EF067920
PHAVU Phaseolus vulgaris (Kidney bean) (French bean) EMBL:DQ886273, EMBL:EU196765
PHYPA Physcomitrella patens (Moss) EMBL:AP005672
PINKO Pinus koraiensis (Korean pine) EMBL:AY228468
PINTH Pinus thunbergii (Green pine) (Japanese black pine) EMBL:D17510
PIPCE Piper cenocladum (Ant piper) EMBL:DQ887677
PLAFA Plasmodium falciparum EMBL:X95275, EMBL:X95276
PLAOC Platanus occidentalis (Sycamore) EMBL:DQ923116
POPAL Populus alba (White poplar) EMBL:AP008956
POPTR Populus trichocarpa (Western balsam poplar) EMBL:EF489041
PORPU Porphyra purpurea EMBL:U38804
PORYE Porphyra yezoensis EMBL:AP006715
PSEAK Pseudendoclonium akinetum (Green alga) EMBL:AY835431
PSINU Psilotum nudum (Whisk fern) EMBL:AP004638
RANMC Ranunculus macranthus (Large buttercup) EMBL:DQ359689
RHDSA Rhodomonas salina (Cryptomonas salina) EMBL:EF508371
SACHY Saccharum hybrid (Sugarcane) EMBL:AE009947
SACOF Saccharum officinarum (Sugarcane) EMBL:AP006714
SCEOB Scenedesmus obliquus EMBL:DQ396875
SELUN Selaginella uncinata (Blue spikemoss) EMBL:AB197035
SOLBU Solanum bulbocastanum (Wild potato) EMBL:DQ347958
SOLLC Solanum lycopersicum (Tomato) EMBL:DQ347959, EMBL:AM087200
SOLTU Solanum tuberosum (Potato) EMBL:DQ231562, EMBL:DQ386163
SORBI Sorghum bicolor (Sorghum) EMBL:EF115542
SOYBN Glycine max (Soybean) EMBL:DQ317523
SPIOL Spinacia oleracea (Spinach) EMBL:AJ400848
STAPU Staurastrum punctulatum (Green alga) EMBL:AY958085
STIHE Stigeoclonium helveticum EMBL:DQ630521
THAPS Thalassiosira pseudonana (Marine diatom) EMBL:EF067921
TOBAC Nicotiana tabacum (Common tobacco) EMBL:Z00044
TOXGO Toxoplasma gondii EMBL:U87145
TRACE Trachelium caeruleum (Blue throatwort) EMBL:EU090187
TRISU Trifolium subterraneum (Subterranean clover) EMBL:EU849487
VAULI Vaucheria litorea (Chromophytic alga) EMBL:EU912438
VITVI Vitis vinifera (Grape) EMBL:DQ424856
WELMI Welwitschia mirabilis (Tree tumbo) EMBL:EU342371, AP009568
WHEAT Triticum aestivum (Wheat) EMBL:AB042240
ZYGCR Zygnema circumcarinatum (Green alga) EMBL:AY958086
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