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
STAT Acco TF Acco01g3162 None None None None
STAT Accr TF Accr1g02827 None None None None
STAT Adu TF Adu04g00063 None None None None
STAT Aed TF Aed4g1236 None None None None
STAT Ahy TF Ahy14g0107 None None None None
STAT Ahy TF Ahy4g0062 None None None None
STAT Aip TF Aip04g00115 None None None None
STAT Alju TF Alju02g0872 None None None None
STAT Amo TF Amo14g0164 None None None None
STAT Amo TF Amo18g2836 None None None None
STAT Apr TF Apr5g0841 None None None None
STAT Arst TF Arst4g00100 None None None None
STAT Arst TF Arst4g00101 None None None None
STAT Arst TF Arst4g00102 None None None None
STAT Bisa TF Bisa12g0413 None None None None
STAT Bva TF Bva07g01558 None None None None
STAT Bva TF Bva09g01005 PF13385 Laminin_G_3 6.5e-07 CL0004
STAT Car TF Car07g02252 PF13385 Laminin_G_3 2e-06 CL0004
STAT Cca TF Cca04g01582 None None None None
STAT Dere TF Dere08g0276 None None None None
STAT Dod TF Dod05g0931 None None None None
STAT Enph TF Enph3g0855 None None None None
STAT Eupl TF Eupl08g00980 PF13385 Laminin_G_3 2.7e-07 CL0004
STAT Gabi TF Gabi4439g00003 PF13385 Laminin_G_3 4.7e-08 CL0004
STAT Glsi TF Glsi14g0902 PF13385 Laminin_G_3 2e-06 CL0004
STAT Gma TF Gma15g02020 None None None None
STAT Gso TF Gso15g1773 None None None None
STAT Lal TF Lal9g0562 None None None None
STAT Lan TF Lan8g1332 PF13385 Laminin_G_3 7e-08 CL0004
STAT Lapu TF Lapu11g01790 None None None None
STAT Lasa TF Lasa4g01491 None None None None
STAT Lasa TF Lasa4g01492 None None None None
STAT Lele TF Lele09g0572 None None None None
STAT Lele TF Lele10g0523 PF16913 PUNUT 1.1e-116 CL0184
STAT Lele TF Lele11g0583 None None None None
STAT Lele TF Lele12g0753 None None None None
STAT Lja TF Lja1g5500 None None None None
STAT Mal TF Mal5g2252 None None None None
STAT Mepo TF Mepo1g03068 None None None None
STAT Mesa TF Mesa29g03439 None None None None
STAT Mesa TF Mesa30g03314 None None None None
STAT Mesa TF Mesa31g03247 None None None None
STAT Mesa TF Mesa32g03224 None None None None
STAT Mibi TF Mibi01g0766 None None None None
STAT Mtr TF Mtr8g1565 None None None None
STAT Phac TF Phac11g02294 None None None None
STAT Phco TF Phco9g01903 None None None None
STAT Pral TF Pral1580g00001 None None None None
STAT Pral TF Pral4746g00097 None None None None
STAT Pral TF Pral4746g00098 None None None None
STAT Prci TF Prci7g1689 None None None None
STAT Psa TF Psa4g3234 None None None None
STAT Pste TF Pste1g04139 None None None None
STAT Pte TF Pte15g01607 PF13385 Laminin_G_3 2.5e-06 CL0004
STAT Pumo TF Pumo10g02389 None None None None
STAT Pvu TF Pvu11g1801 None None None None
STAT Rops TF Rops3g02080 PF13385 Laminin_G_3 1.2e-06 CL0004
STAT Seca TF Seca3g07897 PF13385 Laminin_G_3 3.6e-08 CL0004
STAT Seca TF Seca4g08064 PF13385 Laminin_G_3 6.1e-08 CL0004
STAT Spst TF Spst11g00476 None None None None
STAT Ssu TF Ssu3g1621 None None None None
STAT Stsc TF Stsc120862g00004 None None None None
STAT Stsc TF Stsc91444g00001 None None None None
STAT Tpr TF Tpr7g1351 None None None None
STAT Trre TF Trre15g01767 None None None None
STAT Trre TF Trre15g02423 None None None None
STAT Trre TF Trre16g01842 None None None None
STAT Trre TF Trre16g02480 None None None None
STAT Trre TF Trre16g02481 None None None None
STAT Tsu TF Tsu08g01731 None None None None
STAT Vian TF Vian5g00546 None None None None
STAT Vifa TF Vifa4g00281 None None None None
STAT Vifa TF Vifa4g00282 None None None None
STAT Vifa TF Vifa4g00283 None None None None
STAT Viun TF Viun11g00567 None None None None
STAT Viun TF Viun11g00568 None None None None
STAT Viun TF Viun11g00569 None None None None
STAT Vivi TF Vivi643g00001 PF13385 Laminin_G_3 1.9e-06 CL0004
STAT Vivi TF Vivi643g00002 PF13385 Laminin_G_3 1.9e-06 CL0004
STAT Vvi TF Vvi19g0011 None None None None