Skip to main content

Table 3 The carotenoid metabolic genes: Gene families and the conservation of exon number

From: The genes and enzymes of the carotenoid metabolic pathway in Vitis vinifera L.

  Vitis Arabidopsis Populus Oryza  
vinifera 1 thaliana 2 trichocarpa 3 sativa 4  
Accession Accession Accession Accession Average
Exon (intron)5 Exon (intron) Exon (intron) Exon (intron) Exon number
Gene Gene family 6 Sub family 7      
PSY HOMO01375 ORTHO001026 VV00G37410 AT5G17230 PT00G07390 OS06G51290 6
    6 (5) 6 (5) 6 (5) 6 (5)  
PDS HOM001528 ORTHO003376 VV09G00040 AT4G14210 PT14G09510 OS03G08570 14
    14 (13) 14 (13) 14 (13) 14 (13)  
ZDS HOM001528 ORTHO003216 VV14G05860 AT3G04870 PT00G12105 OS07G10490 14 ± 0.8
    14 (13) 15 (14) 14 (13) 14 (13)  
CISO HOM003569 - VV08G02490 AT1G06820 PT16G05590 OS11G36440 13
    13 (12) 13 (12) 13 (12) 13 (12)  
LECY HOM001393 ORTHO004775 VV11G01840 AT5G57030 PT06G09650 OS01G39960 9.5 ± 2.4
    11 (10) 11 (10) 6 (5) 10 (9)  
ECH HOM000057 - VV08G13950 AT3G53130 PT00G01240 OS10G39930 9.3 ± 0.5
    9 (8) 9 (8) 9 (8) 10 (9)  
LBCY HOM001393 ORTHO005684 VV08G15130 AT3G10230 PT16G03200 OS02G09750 1
    1 (0) 1 (0) 1 (0) 1 (0)  
BCH HOM002126 - VV02G00220 AT4G25700 PT00G07815 OS03G03370 6.8 ± 0.5
    7 (6) 7 (6) 7 (6) 6 (5)  
ZEP HOM004000 - VV07G11310 AT5G67030 PT05G05140 OS04G37619 16
    16 (15) 16 (15) 16 (15) 16 (15)  
VDE HOM005780 - VV00G14320 AT1G08550 PT13G04830 OS04G31040 4.3 ± 1.5
    5 (4) 5 (4) 2 (1) 5 (4)  
NSY HOM001393 ORTHO015350 VV00G44920 NA PT09G01040 NA 1
    1 (0)   1 (0)   
NCED HOM000257 ORTHO000562 VV19G09570 AT3G14440 PT11G07980 OS03G44380 1
    1 (0) 1 (0) 1 (0) 1 (0)  
CCD HOM000257 ORTHO003354 VV13G12530 AT3G63520 PT01G17700 OS12G44310 14
    14 (13) 14 (13) 14 (13) 14 (13)  
  1. 1Vitis vinifera sequence data from Genoscope v1: http://grup.bio.unipd.it/index.php/Grape_Genome.
  2. 2Arabidopsis thaliana sequence data from TAIR8: http://www.arabidopsis.org/.
  3. 3Populus trichocarpa sequence data from JGI 1.1: http://genome.jgi-psf.org/Poptr1_1/Poptr1_1.home.html.
  4. 4Oryza sativa sequence information from TIGR5: http://rice.plantbiology.msu.edu/.
  5. 5 Accession number from Plaza 1.0 (April 2009): (PLAZA v1: http://bioinformatics.psb.ugent.be/plaza_v1/).
  6. 6 The gene family that the homologues are group into (PLAZA v1: http://bioinformatics.psb.ugent.be/plaza_v1/).
  7. 7 The sub-family that the orthologues group into (PLAZA v1: http://bioinformatics.psb.ugent.be/plaza_v1/).