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
ULK_ULK4 Acco PK Acco04g0239 PF00069 Pkinase 2.4e-66 CL0016
ULK_ULK4 Accr PK Accr8g02317 PF00069 Pkinase 9.5e-65 CL0016
ULK_ULK4 Adu PK Adu04g00270 PF00069 Pkinase 1.9e-65 CL0016
ULK_ULK4 Aed PK Aed4g1855 PF00069 Pkinase 1.7e-64 CL0016
ULK_ULK4 Aev PK Aev04g0307 PF00069 Pkinase 9.9e-67 CL0016
ULK_ULK4 Ahy PK Ahy14g0341 PF00069 Pkinase 1.90E-65 CL0016
ULK_ULK4 Ahy PK Ahy4g0262 PF00069 Pkinase 8.80E-22 CL0016
ULK_ULK4 Aip PK Aip04g00369 PF00069 Pkinase 1.9e-65 CL0016
ULK_ULK4 Alju PK Alju06g0256 PF00069 Pkinase 3e-66 CL0016
ULK_ULK4 Amo PK Amo14g0390 PF00069 Pkinase 1.9e-65 CL0016
ULK_ULK4 Apr PK Apr1g1681 PF00069 Pkinase 2.4e-65 CL0016
ULK_ULK4 Arst PK Arst4g00433 PF00069 Pkinase 1.9e-65 CL0016
ULK_ULK4 Arst PK Arst4g00434 PF00069 Pkinase 4.5e-63 CL0016
ULK_ULK4 Bach PK Bach2g01073 PF00069 Pkinase 3.1e-66 CL0016
ULK_ULK4 Bisa PK Bisa08g0367 PF00069 Pkinase 9.2e-35 CL0016
ULK_ULK4 Bva PK Bva07g02172 None None None None
ULK_ULK4 Car PK Car01g00558 PF00069 Pkinase 4.3e-60 CL0016
ULK_ULK4 Cca PK Cca08g02201 PF00069 Pkinase 2.9e-64 CL0016
ULK_ULK4 Dere PK Dere03g1961 PF00069 Pkinase 7.7e-65 CL0016
ULK_ULK4 Dod PK Dod03g0727 PF00069 Pkinase 2.3e-66 CL0016
ULK_ULK4 Enph PK Enph6g1021 PF00069 Pkinase 4.4e-66 CL0016
ULK_ULK4 Eupl PK Eupl12g01137 PF00069 Pkinase 4.3e-66 CL0016
ULK_ULK4 Gabi PK Gabi3398g00052 PF00069 Pkinase 5.5e-65 CL0016
ULK_ULK4 Glsi PK Glsi12g2609 PF00069 Pkinase 1.2e-54 CL0016
ULK_ULK4 Gma PK Gma13g01881 PF00069 Pkinase 1.7e-65 CL0016
ULK_ULK4 Gma PK Gma15g00931 PF00069 Pkinase 3.6e-65 CL0016
ULK_ULK4 Gso PK Gso11g2437 PF00069 Pkinase 1.7e-65 CL0016
ULK_ULK4 Gso PK Gso15g0835 PF00069 Pkinase 3.6e-65 CL0016
ULK_ULK4 Lal PK Lal5g1404 PF00069 Pkinase 2.4e-66 CL0016
ULK_ULK4 Lan PK Lan16g0448 PF00069 Pkinase 2.3e-67 CL0016
ULK_ULK4 Lan PK Lan16g0450 PF00069 Pkinase 4e-66 CL0016
ULK_ULK4 Lan PK Lan4g0366 PF00069 Pkinase 4e-66 CL0016
ULK_ULK4 Lapu PK Lapu6g01522 PF00069 Pkinase 6.3e-65 CL0016
ULK_ULK4 Lasa PK Lasa1g00849 PF00069 Pkinase 1.2e-66 CL0016
ULK_ULK4 Lele PK Lele21g0194 PF00069 Pkinase 6.5e-62 CL0016
ULK_ULK4 Lele PK Lele22g0191 PF00069 Pkinase 1.5e-19 CL0016
ULK_ULK4 Lele PK Lele23g1860 PF00069 Pkinase 1.3e-66 CL0016
ULK_ULK4 Lele PK Lele24g0184 PF00069 Pkinase 3.2e-66 CL0016
ULK_ULK4 Mal PK Mal4g4290 PF00069 Pkinase 1.8e-66 CL0016
ULK_ULK4 Mepo PK Mepo5g00550 PF00069 Pkinase 5.3e-66 CL0016
ULK_ULK4 Mesa PK Mesa17g00577 PF00069 Pkinase 1.2e-65 CL0016
ULK_ULK4 Mesa PK Mesa18g00487 PF00069 Pkinase 5.9e-66 CL0016
ULK_ULK4 Mesa PK Mesa20g00608 PF00069 Pkinase 3.6e-47 CL0016
ULK_ULK4 Mesa PK Mesa5g03897 PF00069 Pkinase 5.5e-67 CL0016
ULK_ULK4 Mesa PK Mesa6g03643 PF00069 Pkinase 5.5e-67 CL0016
ULK_ULK4 Mesa PK Mesa7g03870 PF00069 Pkinase 5.5e-67 CL0016
ULK_ULK4 Mesa PK Mesa8g03842 PF00069 Pkinase 5.5e-67 CL0016
ULK_ULK4 Mibi PK Mibi09g2217 PF00069 Pkinase 2.4e-65 CL0016
ULK_ULK4 Mtr PK Mtr2g0679 PF00069 Pkinase 8.8e-67 CL0016
ULK_ULK4 Mupr PK Mupr5745g00002 PF00069 Pkinase 3.9e-65 CL0016
ULK_ULK4 Phac PK Phac6g02283 PF00069 Pkinase 4.8e-65 CL0016
ULK_ULK4 Phac PK Phac6g02284 PF00069 Pkinase 4.8e-65 CL0016
ULK_ULK4 Phac PK Phac6g02285 PF00069 Pkinase 4.8e-65 CL0016
ULK_ULK4 Phco PK Phco11g00705 PF00069 Pkinase 5.6e-65 CL0016
ULK_ULK4 Pral PK Pral4565g00049 PF00069 Pkinase 2.6e-67 CL0016
ULK_ULK4 Pral PK Pral4565g00050 PF00069 Pkinase 2.6e-67 CL0016
ULK_ULK4 Prci PK Prci4g0326 PF00069 Pkinase 1.2e-66 CL0016
ULK_ULK4 Psa PK Psa1g4273 PF00069 Pkinase 1.6e-65 CL0016
ULK_ULK4 Pste PK Pste2g02401 PF00069 Pkinase 2.8e-65 CL0016
ULK_ULK4 Pte PK Pte2g01960 PF00069 Pkinase 1.9e-66 CL0016
ULK_ULK4 Pte PK Pte3g00846 PF00069 Pkinase 9e-67 CL0016
ULK_ULK4 Pumo PK Pumo2g00481 PF00069 Pkinase 4.1e-65 CL0016
ULK_ULK4 Pumo PK Pumo2g00501 PF00069 Pkinase 4.1e-65 CL0016
ULK_ULK4 Pvu PK Pvu6g1668 PF00069 Pkinase 2.2e-64 CL0016
ULK_ULK4 Rops PK Rops11g00932 PF00069 Pkinase 4.3e-65 CL0016
ULK_ULK4 Sebi PK Sebi169g00135 PF00069 Pkinase 2.7e-65 CL0016
ULK_ULK4 Seca PK Seca5g04785 PF00069 Pkinase 2.8e-65 CL0016
ULK_ULK4 Seca PK Seca6g04577 PF00069 Pkinase 2.8e-65 CL0016
ULK_ULK4 Spst PK Spst6g01073 PF00069 Pkinase 7.2e-65 CL0016
ULK_ULK4 Ssu PK Ssu1g0753 PF00069 Pkinase 1.3e-60 CL0016
ULK_ULK4 Sto PK Sto3g0245 PF00069 Pkinase 1.2e-65 CL0016
ULK_ULK4 Stsc PK Stsc120886g00023 PF00069 Pkinase 1.5e-62 CL0016
ULK_ULK4 Stsc PK Stsc30351g00011 PF00069 Pkinase 1.4e-65 CL0016
ULK_ULK4 Tpr PK Tpr7g2755 PF00069 Pkinase 1.9e-65 CL0016
ULK_ULK4 Trme PK Trme35993g00001 PF00069 Pkinase 7.8e-12 CL0016
ULK_ULK4 Trre PK Trre3g00840 PF00069 Pkinase 9.3e-66 CL0016
ULK_ULK4 Trre PK Trre4g00900 PF00069 Pkinase 8.3e-66 CL0016
ULK_ULK4 Tsu PK Tsu08g03705 PF00069 Pkinase 1e-65 CL0016
ULK_ULK4 Vian PK Vian4g01361 PF00069 Pkinase 6.7e-21 CL0016
ULK_ULK4 Vian PK Vian6g01516 PF00069 Pkinase 7e-65 CL0016
ULK_ULK4 Vifa PK Vifa1g09117 PF00069 Pkinase 2.6e-52 CL0016
ULK_ULK4 Vifa PK Vifa1g09118 PF00069 Pkinase 9.3e-41 CL0016
ULK_ULK4 Vifa PK Vifa1g10081 PF00069 Pkinase 4.7e-53 CL0016
ULK_ULK4 Vimu PK Vimu2g00967 PF00069 Pkinase 1.4e-64 CL0016
ULK_ULK4 Vium PK Vium11079g00002 PF00069 Pkinase 2.2e-33 CL0016
ULK_ULK4 Vium PK Vium210g00036 PF00069 Pkinase 1.1e-64 CL0016
ULK_ULK4 Viun PK Viun6g02448 PF00069 Pkinase 6.5e-65 CL0016
ULK_ULK4 Vivi PK Vivi450g00013 PF00069 Pkinase 9.5e-67 CL0016
ULK_ULK4 Vivi PK Vivi4g03452 PF00069 Pkinase 9.5e-67 CL0016
ULK_ULK4 Vra PK Vra10g0111 PF00069 Pkinase 8.4e-17 CL0016
ULK_ULK4 Vra PK Vra10g1066 PF00069 Pkinase 1.4e-64 CL0016
ULK_ULK4 Vvi PK Vvi5g0425 PF00069 Pkinase 1.1e-38 CL0016