Link up to TRRD home page

Plant Genes Knowledge Base

Plant Transcription Regulatory Regions Database (PLANT-TRRD)

with links to the GeneNet database


The TRRD database stores an information on  gene regulatory regions.  By applying the tools of GeneNet database, the gene networks are generated. Gene networks contain an information about elementary structures and events of the process.

ST - transcription start site
SR - translation start site
SS - bigining of sequence
 

[Top]

Monocot seed storage proteins genes

 
   Biology of a process.
      Gene network on accumulation of storage proteins in endosperm of grasses.
 

Gene Organism Region 
low molecular weight glutenin 1D1  wheat, Triticum aestivum ST: -500 to +30 
high molecular weight glutenin D1-2  wheat, Triticum aestivum ST: -375 to -45
HMW glutenin subnit 12 wheat, Triticum aestivum ST: -2600 to -5
alpha-zein 19 kDa  maize, Zea mays ST:-362 to -317
beta-zein maize, Zea mays SR: -233 to +81
gamma-zein 27 kDa maize, Zea mays ST: -1024 to +61
alpha-zein 22 kDa maize, Zea mays SR: -338 to -268
beta-coixin Job's tears, Coix lacryma-jobi SR: -233 to -13
C-hordein barley, Hordeum vulgare ST: -431 to -126
B1 hordein barley, Hordeum vulgare ST: -549 to +37
glutelin A-1 rice, Oryza sativa ST: -595 to -86
glutelin A-2 rice, Oryza sativa ST: -5100 to +1
glutelin A-3 rice, Oryza sativa ST: -945 to +5
glutelin B-1 rice, Oryza sativa ST: -621 to +18
prolamin 5a rice, Oryza sativa ST: -642 to -155
alpha-globulin-1 rice, Oryza sativa ST: -754 to -89
16 kDa albumin G1 rice, Oryza sativa ST: -557 to -152
alpha-kafirin sorghum, Sorghum bicolor ST: -855 to +66 

  [Top]

Dicot seed storage proteins genes

Gene network on accumulation of storage proteins.
 

Gene Organism Region
prunin almond, Prunus dulcis  
helianthinin G3D sunflower, Helianthus annuus ST: -875 to +1
helianthinin G3A sunflower, Helianthus annuus ST: -1700 to +1
legumin A pea, Pisum sativum ST: -1204 to +45
lectin pea, Pisum sativum ST: -448 to +43
beta-phaseolin french bean, Phaseolus vulgaris ST: -422 to -13
glycinin subunit G2 soybean, Glycine max ST: -119 to -89
beta-conglycinin alpha'-subunit  soybean, Glycine max ST: -257 to +14
beta-conglycinin beta-subunit soybean, Glycine max ST;-422 to +45
napin A oilseed rape, Brassica napus ST:-309 to +44
2S albumin carrot, Daucus carota ST: -748 to +1
narbonin narbon bean, Vicia narbonensis  

  [Top]

Low-temperature regulated proteins genes

 

Gene Organism Region
Ltp4.2 barley, Hordeum vulgare SR; -665 to -1
Ltp4.3 barley, Hordeum vulgare  
ADH-1 maize, Zea mays ST: -406 to +1
BN115 oilseed rape, Brassica napus ST: -300 to -25
wcs120 wheat, Triticum aestivum ST: -860 to +1
COR15a mouse-ear cress, Arabidopsis thaliana SS: 717 to 733
COR78 mouse-ear cress, Arabidopsis thaliana SS: 696 to 756
ADH mouse-ear cress, Arabidopsis thaliana SS: 1553 to 1632

  [Top]

Heat shock proteins genes

 

Gene Organism Region
hsp 18.5-C soybean, Glycine max SR:-900 to +730
hsp 17.9-D soybean, Glycine max SR:-1264 to +1163
hsp 17.5-E soybean, Glycine max ST: -1175 to +173
hsp 17.5-L soybean, Glycine max ST; -200 to +1
hsp 17.5-M soybean, Glycine max ST; -200 to +1
hsp17.3-B soybean, Glycine max SR;-350 to -20
hsp 81-1 mouse-ear cress,  Arabidopsis thaliana ST:-360 to -1

  [Top]

Genes of photosynthesis system

 

Gene Organism Region
rbcS-1A mouse-ear cress, Arabidopsis thaliana ST:-359 to -278
rbcS 3A tomato, Lycopersicon esculentum ST: -359 to -278
rbcS maize, Zea mays ST: -808 to - 230
phosphoenolpyruvate carboxylase maize, Zea mays ST: -550 to -30
anthocyanin gene 2 maize, Zea mays ST: -1900 to +1
anthocyanin gene 1 maize, Zea mays ST; -1400 to +1
rbcS-611 petunia, Petunia gybrida ST; -200 to -170
phytochrome A rice, Oryza sativa ST: -364 to +1
rbcS-3A pea, Pisum sativum ST: -291 to -52
AB80 pea, Pisum sativum ST; -2500 to +1

  [Top]

Embryo-specific genes

 

Gene Organism Region
embryo-specific gene wheat, Triticum aestivum ST: -168 to +1
GBS (Waxy) maize, Zea mays  ST: -5300 to +133
albumin b-32 maize, Zea mays ST: -1250 to +1
EM rice, Oryza sativa ST: -345 to -159
DLEC2 french bean, Phaseolus vulgaris ST: -256 to -4
oleosin A soybean, Glycine max ST: -397 to +10
Lea gene HVA1 barley, Hordeum vulgare ST: -134 to -167
Unknown Seed Protein fava bean, Vicia faba ST: -637 to +30

   [Top]

Abscisic acid-responsive genes

 

Gene Organism Region
alpha-amylase 6-4 barley, Hordeum vulgare ST; -1800 to -1
alpha-amylase 32b barley, Hordeum vulgare ST; 151 to -105
rab-16A rice, Oryza sativa ST: -294 to -52
rab17 rice, Oryza sativa ST: -350 to +30
DC8 carrot, Daucus carota ST: -748 to +1
B-type cyclin periwinkle, Catharanthus roseus ST: -404 to +17
21.2 kDa oleosin mouse-ear cress, Arabidopsis thaliana ST: -2500 to +1
rd29A mouse-ear cress, Arabidopsis thaliana ST: -549 to +1
oleosin BN-III oilseed rape, Brassica napus ST: -872  to +72

[Top]

Auxin-responsive genes

 

Gene Organism Region
GmAux28 soybean, Glycine max ST: -321 to -126
GH3 soybean, Glycine max ST: -397 to +10
GST gene Nt103 tobacco, Nicotiana tabacum SR:-365 to -350
GST gene Nt114 tobacco, Nicotiana tabacum SR:-101 to -77
GST gene 103-35 tobacco, Nicotiana tabacum ST;-334 to -+1
arcA tobacco, Nicotiana tabacum ST:-1022 to -349

  [Top]

Transcription factor genes

 

Gene Organism Region
Opaque 2 maize, Zea mays ST: -190 to +1
colorless 1 maize, Zea mays ST: -154 to -51
Rubisco activase mouse-ear cress, Arabidopsis thaliana ST -1377 to +13
APETALA3 mouse-ear cress,  Arabidopsis thaliana SS: 1553 to 1632
At:DREB1A mouse-ear cress,  Arabidopsis thaliana ST; -984 to +1
At:DREB1B mouse-ear cress,  Arabidopsis thaliana ST: -433 to +1
At:DREB1C mouse-ear cress,  Arabidopsis thaliana ST; -463 to +1

[Top]

Secondary plant product metabolism genes

 

Gene Organism Region
chalcone synthase parsley, Petroselinum crispum SS: 478 to 506
CPRF1 parsley, Petroselinum crispum ST: -1404 to +155
phenylalanine ammonia-lyase parsley, Petroselinum crispum ST; -255 to +1
chalcone synthase petunia, Petunia hybrida ST: -240 to +81
chalcone synthase 15 french bean, Phaseolus vulgaris ST; -326 to +1
tryptophan decarboxylase periwinkle, Catharanthus roseus ST: -575 to +198
chalcone synthase snapdragon, Antirrhinum majus ST: -357 to -39

  [Top]

Nodul-specific genes

 

Gene Organism Region
glutamine synthetase 1 lotus, Lotus japonicus SR;-1381 to +120
nodulin N23  soybean, Glycine max ST: -392 to +1
leghaemoglobin Lbc3 Soybean, Glycine max ST: -1100 to -49
early nodulin gene 7 pea, Pisum sativum  

  [Top]

Plant viruses

 

Gene Organism Region
CaMV Cauliflower mosaic virus ST: -90 to +2
MSV coat protein Maize Streak Virus GS: 2450 to 2570

  [Top]

Pathogenesis related proteins genes

    Gene network on plant interaction with pathogen organisms
 

Gene Organism Region
blt4.9 barley, Hordeum vulgare SR: -1938 to +3
Ltp4.3 barley, Hordeum vulgare SR; -755 to -1
lipoxygenase 1 barley, Hordeum vulgare ST: -910 to +68
chitinase 5B french bean, Phaseolus vulgaris ST: -1470 to +1
CPR Madagascar periwinkle, Catharanthus roseus SR; -1510 to -8
PR1 parsley, Petroselinum crispum ST: -255 to -120
PR1-1 parsley, Petroselinum crispum ST: -840 to +1
PR1-2 parsley, Petroselinum crispum ST: -443 to +1
PR-1a tobacco, Nicotiana tabacum ST: -902 to +22
PRB-1b tobacco, Nicotiana tabacum ST:-209 to -173
beta-1,3-glucanase 1 tobacco, Nicotiana tabacum ST: -1164 to -1118
beta-1,3-glucanase 2 tobacco, Nicotiana tabacum SR: -2000 to +39
acidic beta-1,3-glucanase tobacco, Nicotiana tabacum SR; -1750 to -16
msr gene str246C tobacco, Nicotiana tabacum ST: -2076 to +1

 [Top]

Other genes

 

Gene Organism Region
oleosin almond, Prunus dulcis  
oleosin-like gene B;13 oilseed rape, Brassica napus SR; -1906 to +1
oleosin-like gene B;4 oilseed rape, Brassica napus SR; -1957 to +1
Alcohol dehydrogenase-1 (F-allele) maize, Zea mays ST: -406 to +1
granule-bound starch synthase maize, Zea mays ST: -5300 to +133
32 kd albumin maize, Zea mays ST: -1250 to +1
pyruvate orthophosphate dikinase-1 maize, Zea mays ST: -1000 to +96
Gap Mesembryanthemum crystallinum ST;-1279 to +1
Ppc1 Mesembryanthemum crystallinum ST;-1283 to +1
turgor-responsive gene 3 pea, Pisum sativum ST; -1412  to -1066
isocitrate lyase cucumber, Cucumis sativus ST -1029 to +1
malate  synthase cucumber, Cucumis sativus ST: 1029 to +1
alpha-amylase barley, Hordeum vulgare ST: -1800 to -1
cysteine proteinase B1 barley, Hordeum vulgare ST: -921 to +118
cysteine proteinase B2 barley, Hordeum vulgare ST: -726 to +118
E4 tomato, Lycopersicon esculentum ST: -160 to + 65
AGP rice, Oryza sativa ST: -747 to +53
amylase 3D rice, Oryza sativa ST; -876 to +40
phytohemagglutinin L-subunit french bean, Phaseolus vulgaris ST: -256 to -4
glycine-rich protein 1.8 french bean, Phaseolus vulgaris ST: -205 to -125
nitrate reductase 1 mouse-ear cress,  Arabidopsis thaliana SR: -238 to +1
nitrate reductase 2 mouse-ear cress,  Arabidopsis thaliana SR; -330 to +1
Rubisco activase mouse-ear cress, Arabidopsis thaliana ST; -1377 to +13
histone H3 wheat, Triticum aestivum ST; -184 to 130

  [Top]

Author: Goryachkovsky Tatyana