Table I.

Number of known and predicted Arabidopsis transcription factor genes and those with detected gene expression in seedlings Genes are classified by family on the basis of sequence similarity. All genes are counted only once, regardless of extra signature motif(s), thus this table is non-redundant.

Gene Family Predicted Overall Expressed WL Expressed Dark Expressed
% % %
AP2/ERF 127 103 81.1 86 67.7 58 45.7
bHLH 108 90 83.3 78 72.2 60 55.6
MYB 269 220 81.8 194 72.1 160 59.5
C2H2(Zn) 147 108 73.5 98 66.7 48 32.7
NAC 107 78 72.9 54 50.5 69 64.5
HB 95 92 96.8 87 91.6 92 96.8
MADS 93 84 90.3 68 73.1 70 75.3
bZIP 88 77 87.5 66 75 67 76.1
WRKY(Zn) 73 64 87.7 47 64.4 58 79.5
GARP:G2-LIKE 53 50 94.3 44 83 45 84.9
GARP:ARR-B 3 3 100 3 100 3 100
C2C2:DOF 34 33 97.1 29 85.3 23 67.6
C2C2:CO-like 32 28 87.5 25 78.1 23 71.9
C2C2:GATA 7 7 100 7 100 7 100
C2C2:YABBY 5 5 100 4 80 5 100
CCAAT:HAP2 10 8 80 6 60 7 70
CCAAT:HAP3 13 9 69.2 8 61.5 9 69.2
CCAAT:HAP5 13 13 100 13 100 13 100
GRAS 32 30 93.8 30 93.8 23 71.9
Trihelix 8 5 62.5 4 50 5 62.5
HSF 30 21 70 16 53.3 17 56.7
TCP 22 18 81.8 14 63.6 14 63.6
ARF 22 21 95.5 17 77.3 18 81.8
C3H-TYPE1(Zn) 45 35 77.8 33 73.3 13 28.9
C3H-TYPE2(Zn) 26 24 92.3 22 84.6 24 92.3
SBP 16 15 93.8 12 75 15 93.8
Nin-like 14 6 42.9 4 28.6 6 42.9
ABI3/VP1 11 10 90.9 7 63.6 7 63.6
TULP 9 9 100 8 88.9 5 55.6
E2F/DF 7 6 85.7 5 71.4 6 85.7
CPP(Zn) 7 6 85.7 4 57.1 6 85.7
Alfin-like 6 5 83.3 5 83.3 4 66.7
EIL 5 5 100 5 100 4 80
LEAFY 3 3 100 3 100 3 100
Aux/IAA 28 28 100 22 78.6 22 78.6
HMG-box 16 14 87.5 12 75 12 75
ARID 5 5 100 5 100 4 80
JUMONJI 8 8 100 8 100 7 87.5
PcG 4 4 100 4 100 3 75
Others 263 222 84.4 210 79.2 200 76
Total 1,864 1,578 84.7 1,371 73.6 1,241 66.6