Regulatory proteins (RPs)

  In this study, we systemically compared TF/TR classification rules used in different databases, and derived a set of consensus rules based on the available literature for accurate plant TF/TR identification and classification. For plant PKs, we directly used the HMM profiles developed by Lehti-Shiu and Shiu (2012) to provide a comprehensive classification system. These consensus rules for TF/TR classification and HMM profiles for PK classification were implemented in iTAK, a computational program that provides consistency and uniformity on the identification and classification of plant TFs, TRs, and PKs.
  The relevant gene ids can be obtained from the legume blast and match under the Tools module.This link is Legume blast and match.

Regulatory proteins (RPs)

Transcription factors (TFs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
AP2 or ERF-AP2 AP2 or ERF-ERF AP2 or ERF-RAV Alfin-like B3 B3-ARF BBR-BPC BES1
BSD C2C2-CO-like C2C2-Dof C2C2-GATA C2C2-LSD C2C2-YABBY C2H2 C3H
CAMTA CPP CSD DBB DBP E2F-DP EIL FAR1
GARP-ARR-B GARP-G2-like GRAS GRF GeBP HB-BELL HB-HD-ZIP HB-KNOX
HB-PHD HB-WOX HB-other HRT HSF LFY LIM LOB
MADS-M-type MADS-MIKC MYB MYB-related NAC NF-X1 NF-YA NF-YB
NF-YC NOZZLE OFP PLATZ RWP-RK S1Fa-like SAP SBP
SRS STAT TCP TUB Tify Trihelix ULT VOZ
WRKY Whirly bHLH bZIP zf-HD --- --- ---

Transcription regulators (TRs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
ARID AUX or IAA Coactivator p15 DDT GNAT HMG IWS1 Jumonji
LUG MBF1 MED6 MED7 Others PHD Pseudo ARR-B RB
Rcd1-like SET SNF2 SOH1 SWI or SNF-BAF60b SWI or SNF-SWI3 TAZ TRAF
mTERF --- --- --- --- --- --- ---

Protein kinases (PKs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
AGC-Pl AGC_MAST AGC_NDR AGC_PDK1 AGC_PKA-PKG AGC_RSK-2 Aur AurL-Cr-1
BUB CAMK_AMPK CAMK_CAMK1-DCAMKL CAMK_CAMK1-Tthe CAMK_CAMKL-CHK1 CAMK_CAMKL-LKB CAMK_CDPK CAMK_Cr-1
CAMK_OST1L CK1_CK1 CK1_CK1-Pl CMGC_CDK-CCRK CMGC_CDK-CDK7 CMGC_CDK-CDK8 CMGC_CDK-CRK7-CDK9 CMGC_CDK-PITSLRE
CMGC_CDK-Pl CMGC_CDKL-Cr CMGC_CDKL-Os CMGC_CK2 CMGC_CLK CMGC_DYRK-PRP4 CMGC_DYRK-YAK CMGC_GSK
CMGC_GSKL CMGC_MAPK CMGC_Pl-Tthe CMGC_RCK CMGC_SRPK Group-Cr-1 Group-Pl-2 Group-Pl-3
Group-Pl-4 Group-other IRE1 NAK NEK PEK_GCN2 PEK_PEK RLK-Pelle_C-LEC
RLK-Pelle_CR4L RLK-Pelle_CrRLK1L-1 RLK-Pelle_DLSV RLK-Pelle_DSLV RLK-Pelle_Extensin RLK-Pelle_L-LEC RLK-Pelle_LRK10L-2 RLK-Pelle_LRR-I-1
RLK-Pelle_LRR-I-2 RLK-Pelle_LRR-II RLK-Pelle_LRR-III RLK-Pelle_LRR-IV RLK-Pelle_LRR-IX RLK-Pelle_LRR-V RLK-Pelle_LRR-VI-1 RLK-Pelle_LRR-VI-2
RLK-Pelle_LRR-VII-1 RLK-Pelle_LRR-VII-2 RLK-Pelle_LRR-VII-3 RLK-Pelle_LRR-VIII-1 RLK-Pelle_LRR-XI-1 RLK-Pelle_LRR-XI-2 RLK-Pelle_LRR-XII-1 RLK-Pelle_LRR-XIIIa
RLK-Pelle_LRR-XIIIb RLK-Pelle_LRR-XIV RLK-Pelle_LRR-XV RLK-Pelle_LRR-Xa RLK-Pelle_LRR-Xb-1 RLK-Pelle_LRR-Xb-2 RLK-Pelle_LysM RLK-Pelle_PERK-1
RLK-Pelle_PERK-2 RLK-Pelle_RKF3 RLK-Pelle_RLCK-II RLK-Pelle_RLCK-IV RLK-Pelle_RLCK-IXa RLK-Pelle_RLCK-IXb RLK-Pelle_RLCK-Os RLK-Pelle_RLCK-V
RLK-Pelle_RLCK-VI RLK-Pelle_RLCK-VIII RLK-Pelle_RLCK-VIIa-1 RLK-Pelle_RLCK-VIIa-2 RLK-Pelle_RLCK-VIIb RLK-Pelle_RLCK-X RLK-Pelle_RLCK-XI RLK-Pelle_RLCK-XII-1
RLK-Pelle_RLCK-XII-2 RLK-Pelle_RLCK-XIII RLK-Pelle_RLCK-XV RLK-Pelle_RLCK-XVI RLK-Pelle_SD-2b RLK-Pelle_Singleton RLK-Pelle_URK-1 RLK-Pelle_URK-2
RLK-Pelle_URK-3 RLK-Pelle_URK-Pp-1 RLK-Pelle_WAK RLK-Pelle_WAK_LRK10L-1 SCY1_SCYL1 SCY1_SCYL2 STE_STE-Pl STE_STE11
STE_STE20-Fray STE_STE20-Pl STE_STE20-YSK STE_STE7 TKL-Cr-3 TKL-Cr-4 TKL-Cr-Single TKL-Pl-1
TKL-Pl-2 TKL-Pl-3 TKL-Pl-4 TKL-Pl-5 TKL-Pl-6 TKL-Pl-7 TKL-Pl-8 TKL_CTR1-DRK-1
TKL_CTR1-DRK-2 TKL_Gdt TLK TTK ULK_Fused ULK_ULK4 WEE WNK_NRBP

Results

Select RPs_name Species RPs_type Gene ID Hmm_acc Hmm_name E-value Clan
MED7 Acco TR Acco02g3444 PF05983 Med7 1.9e-41 No_clan
MED7 Acco TR Acco09g1489 PF05983 Med7 2.6e-42 No_clan
MED7 Accr TR Accr2g00473 PF05983 Med7 2.1e-42 No_clan
MED7 Accr TR Accr7g00691 PF05983 Med7 3.2e-42 No_clan
MED7 Adu TR Adu06g00087 PF05983 Med7 8e-43 No_clan
MED7 Adu TR Adu07g01199 PF05983 Med7 1.6e-42 No_clan
MED7 Aed TR Aed2g0115 PF05983 Med7 3e-43 No_clan
MED7 Aev TR Aev01g0834 PF05983 Med7 2.2e-41 No_clan
MED7 Ahy TR Ahy16g1372 PF05983 Med7 5.50E-43 No_clan
MED7 Ahy TR Ahy17g1336 PF05983 Med7 2.60E-43 No_clan
MED7 Ahy TR Ahy6g0086 PF05983 Med7 5.50E-43 No_clan
MED7 Ahy TR Ahy7g1102 PF05983 Med7 3.10E-43 No_clan
MED7 Aip TR Aip06g01410 PF05983 Med7 5.4e-43 No_clan
MED7 Aip TR Aip07g01280 PF05983 Med7 6.9e-43 No_clan
MED7 Alju TR Alju01g3427 PF05983 Med7 1.2e-42 No_clan
MED7 Alju TR Alju1000337g0007 PF05983 Med7 1.9e-33 No_clan
MED7 Alju TR Alju11g0697 PF05983 Med7 1.3e-41 No_clan
MED7 Amo TR Amo06g0280 PF05983 Med7 1.6e-29 No_clan
MED7 Amo TR Amo07g0864 PF05983 Med7 1e-40 No_clan
MED7 Amo TR Amo17g0714 PF05983 Med7 2.6e-43 No_clan
MED7 Apr TR Apr351g0119 PF05983 Med7 3.4e-44 No_clan
MED7 Arst TR Arst6g00120 PF05983 Med7 8e-43 No_clan
MED7 Arst TR Arst6g00121 PF05983 Med7 8e-43 No_clan
MED7 Arst TR Arst7g01591 PF05983 Med7 3.1e-43 No_clan
MED7 Arst TR Arst7g01592 PF05983 Med7 3.1e-43 No_clan
MED7 Bach TR Bach1g02268 PF05983 Med7 1.7e-44 No_clan
MED7 Bach TR Bach8g01054 PF05983 Med7 4.6e-42 No_clan
MED7 Bisa TR Bisa03g2222 PF05983 Med7 1.8e-42 No_clan
MED7 Bva TR Bva04g02292 PF05983 Med7 2.5e-42 No_clan
MED7 Bva TR Bva13g02271 PF05983 Med7 1.5e-41 No_clan
MED7 Car TR Car01g02509 PF05983 Med7 2.4e-43 No_clan
MED7 Cca TR Cca11g00142 PF05983 Med7 1.1e-43 No_clan
MED7 Dere TR Dere01g2559 PF05983 Med7 1.4e-42 No_clan
MED7 Dod TR Dod01g1345 PF05983 Med7 1.8e-41 No_clan
MED7 Dod TR Dod03g2540 PF05983 Med7 4.6e-23 No_clan
MED7 Enph TR Enph2g0965 PF05983 Med7 2.4e-43 No_clan
MED7 Eupl TR Eupl05g00812 PF05983 Med7 1.2e-40 No_clan
MED7 Gabi TR Gabi1008g00004 PF05983 Med7 1.7e-41 No_clan
MED7 Gabi TR Gabi1008g00005 PF05983 Med7 2.2e-40 No_clan
MED7 Gabi TR Gabi1008g00006 PF05983 Med7 2.2e-40 No_clan
MED7 Gabi TR Gabi1008g00007 PF05983 Med7 2.2e-40 No_clan
MED7 Gabi TR Gabi2485g00023 PF05983 Med7 5.7e-42 No_clan
MED7 Gabi TR Gabi2485g00024 PF05983 Med7 5.7e-42 No_clan
MED7 Gabi TR Gabi2485g00025 PF05983 Med7 5.7e-42 No_clan
MED7 Gabi TR Gabi2485g00026 PF05983 Med7 5.7e-42 No_clan
MED7 Glsi TR Glsi02g2469 PF05983 Med7 2.7e-42 No_clan
MED7 Gma TR Gma07g00273 PF05983 Med7 3.1e-42 No_clan
MED7 Gma TR Gma08g01957 PF05983 Med7 3e-42 No_clan
MED7 Gso TR Gso7g0255 PF05983 Med7 3.1e-42 No_clan
MED7 Gso TR Gso8g1776 PF05983 Med7 3.1e-42 No_clan
MED7 Lal TR Lal21g1323 PF05983 Med7 3.4e-41 No_clan
MED7 Lal TR Lal9g1580 PF05983 Med7 1.7e-34 No_clan
MED7 Lan TR Lan11g1766 PF05983 Med7 5.1e-42 No_clan
MED7 Lan TR Lan3g1454 PF05983 Med7 1.5e-41 No_clan
MED7 Lapu TR Lapu10g00638 PF05983 Med7 5.2e-43 No_clan
MED7 Lasa TR Lasa1g06120 PF05983 Med7 3.1e-42 No_clan
MED7 Lele TR Lele41g0911 PF05983 Med7 5.2e-42 No_clan
MED7 Lele TR Lele42g0892 PF05983 Med7 2.9e-41 No_clan
MED7 Lele TR Lele43g0496 PF05983 Med7 2e-42 No_clan
MED7 Lele TR Lele44g0464 PF05983 Med7 9.2e-43 No_clan
MED7 Mal TR Mal3g0518 PF05983 Med7 5.9e-42 No_clan
MED7 Mal TR Mal4g0669 PF05983 Med7 1.7e-42 No_clan
MED7 Mepo TR Mepo6g03834 PF05983 Med7 6.8e-43 No_clan
MED7 Mesa TR Mesa25g02954 PF05983 Med7 7.6e-33 No_clan
MED7 Mesa TR Mesa26g02850 PF05983 Med7 2.9e-40 No_clan
MED7 Mesa TR Mesa26g02901 PF05983 Med7 2.8e-31 No_clan
MED7 Mesa TR Mesa28g03155 PF05983 Med7 6.7e-38 No_clan
MED7 Mesa TR Mesa5g00607 PF05983 Med7 4.3e-43 No_clan
MED7 Mesa TR Mesa7g00614 PF05983 Med7 6.8e-43 No_clan
MED7 Mesa TR Mesa8g00593 PF05983 Med7 6.8e-43 No_clan
MED7 Mibi TR Mibi02g3138 PF05983 Med7 8.2e-40 No_clan
MED7 Mibi TR Mibi11g1290 PF05983 Med7 2.3e-42 No_clan
MED7 Mtr TR Mtr2g3254 PF05983 Med7 9e-43 No_clan
MED7 Mtr TR Mtr6g1835 PF05983 Med7 6.2e-43 No_clan
MED7 Mupr TR Mupr8314g00006 PF05983 Med7 2.4e-42 No_clan
MED7 Phac TR Phac10g02097 PF05983 Med7 1.6e-42 No_clan
MED7 Phco TR Phco1g00115 PF05983 Med7 8.7e-43 No_clan
MED7 Pral TR Pral4351g00004 PF05983 Med7 4.9e-43 No_clan
MED7 Prci TR Prci13g0834 PF05983 Med7 2.7e-43 No_clan
MED7 Prci TR Prci13g0835 PF05983 Med7 2.7e-43 No_clan
MED7 Psa TR Psa5g6435 PF05983 Med7 4e-43 No_clan
MED7 Pste TR Pste1g03653 PF05983 Med7 2.1e-29 No_clan
MED7 Pte TR Pte11g01479 PF05983 Med7 1.7e-42 No_clan
MED7 Pte TR Pte11g01481 PF05983 Med7 9.2e-08 No_clan
MED7 Pte TR Pte16g00891 PF05983 Med7 5.1e-44 No_clan
MED7 Pte TR Pte16g00892 PF05983 Med7 5.4e-30 No_clan
MED7 Pte TR Pte18g01470 PF05983 Med7 2.2e-21 No_clan
MED7 Pte TR Pte5g00831 PF05983 Med7 4.5e-30 No_clan
MED7 Pte TR Pte5g00832 PF05983 Med7 1.5e-21 No_clan
MED7 Pumo TR Pumo6g00466 PF05983 Med7 1.2e-23 No_clan
MED7 Pumo TR Pumo7g00137 PF05983 Med7 2.8e-09 No_clan
MED7 Pvu TR Pvu10g1625 PF05983 Med7 1.4e-42 No_clan
MED7 Rops TR Rops8g01667 PF05983 Med7 1.2e-43 No_clan
MED7 Rops TR Rops8g01686 PF05983 Med7 1.1e-42 No_clan
MED7 Seca TR Seca1g01954 PF05983 Med7 5.6e-09 No_clan
MED7 Seca TR Seca1g01958 PF05983 Med7 2.3e-42 No_clan
MED7 Seca TR Seca2g01961 PF05983 Med7 2.3e-27 No_clan
MED7 Spst TR Spst4g02431 PF05983 Med7 1.3e-42 No_clan
MED7 Ssu TR Ssu3g1339 PF05983 Med7 1.5e-42 No_clan
MED7 Ssu TR Ssu4g3449 PF05983 Med7 3.8e-41 No_clan
MED7 Sto TR Sto8g1191 PF05983 Med7 2.4e-42 No_clan
MED7 Stsc TR Stsc30385g00007 PF05983 Med7 3.6e-43 No_clan
MED7 Stsc TR Stsc30615g00003 PF05983 Med7 2e-23 No_clan
MED7 Stsc TR Stsc30615g00004 PF05983 Med7 6.7e-09 No_clan
MED7 Tpr TR Tpr6g3871 PF05983 Med7 2.1e-40 No_clan
MED7 Tpr TR Tpr7g4395 PF05983 Med7 1e-42 No_clan
MED7 Trre TR Trre11g04299 PF05983 Med7 2.9e-43 No_clan
MED7 Trre TR Trre12g04132 PF05983 Med7 3.4e-43 No_clan
MED7 Trre TR Trre13g01302 PF05983 Med7 4.2e-18 No_clan
MED7 Trre TR Trre14g01306 PF05983 Med7 3.2e-35 No_clan
MED7 Tsu TR Tsu02g05094 PF05983 Med7 1.6e-42 No_clan
MED7 Tsu TR Tsu04g01116 PF05983 Med7 1.8e-41 No_clan
MED7 Vian TR Vian9g00086 PF05983 Med7 9.1e-43 No_clan
MED7 Vimu TR Vimu11g02764 PF05983 Med7 3e-21 No_clan
MED7 Vium TR Vium1381g00001 None None None None
MED7 Viun TR Viun10g02757 PF05983 Med7 9.1e-43 No_clan
MED7 Viun TR Viun10g02758 PF05983 Med7 9.1e-43 No_clan
MED7 Viun TR Viun10g02759 PF05983 Med7 9.1e-43 No_clan
MED7 Vivi TR Vivi206g00006 PF05983 Med7 3.8e-42 No_clan
MED7 Vivi TR Vivi206g00007 PF05983 Med7 2.6e-43 No_clan
MED7 Vivi TR Vivi206g00008 PF05983 Med7 2.6e-43 No_clan
MED7 Vivi TR Vivi2g07181 PF05983 Med7 3.8e-42 No_clan
MED7 Vivi TR Vivi2g07182 PF05983 Med7 2.6e-43 No_clan
MED7 Vivi TR Vivi2g07183 PF05983 Med7 2.6e-43 No_clan
MED7 Vivi TR Vivi2g07184 PF05983 Med7 2.6e-43 No_clan
MED7 Vra TR Vra9g0077 PF05983 Med7 9.3e-43 No_clan
MED7 Vvi TR Vvi8g1498 PF05983 Med7 2.9e-43 No_clan