Seed development (WP2279)

This Arabidopsis seed development pathway network in GPML format was projected using the reference rice seed development network [[Pathway:WP2199]] and the Arabidopsis to rice gene homology data sets. The green colored nodes (genes) represent where the Inparanoid-based gene homology was positively predicted based on the cutoffs used. The tool used for making the projection was [ Pathway GeneSWAPPER]. Method is described in the publication [ Hanumappa et al. (2013)]. This method creates a new projection, but preserves the interactions between nodes.
last edited


Jaiswallab, Khanspers, MaintBot, Pjaiswal, Mkutmon, and Eweitz

Cited In


Arabidopsis thaliana



Pathway Ontology: regulatory pathway signaling pathway

Cell Type Ontology: obsolete plant cell


Label Type Compact Identifier
AT4G19720 GeneProduct
AT4G19750 GeneProduct
CYP76C6 GeneProduct
AT2G14710 GeneProduct
ATNAS2 GeneProduct
AT3G49190 GeneProduct
AT4G19760 GeneProduct
CYP76C4 GeneProduct
CYP76C1 GeneProduct
AT3G16580 GeneProduct
NAS1 GeneProduct
RACK1C_AT GeneProduct
AT1G03670 GeneProduct
AtHsp90.4 GeneProduct
AT4G19800 GeneProduct
AT3G49210 GeneProduct
BHLH038 GeneProduct
CYCB1;5 GeneProduct
PGL34 GeneProduct
AT4G03460 GeneProduct
TEM1 GeneProduct
CSN5B GeneProduct
MYB65 GeneProduct
ATHB12 GeneProduct
AT2G18110 GeneProduct
ARD1 GeneProduct
AT1G48860 GeneProduct
AT5G48250 GeneProduct
ATIREG1 GeneProduct
HSP81-3 GeneProduct
NAC053 GeneProduct
AT3G49200 GeneProduct
DAD2 GeneProduct
AtcwINV4 GeneProduct
SUS1 GeneProduct
AtcwINV4 GeneProduct
CML23 GeneProduct
AT1G09640 GeneProduct
AT3G54030 GeneProduct
CRU2 GeneProduct
AT1G62660 GeneProduct
CRU2 GeneProduct
CRU2 GeneProduct
APUM11 GeneProduct
EIL1 GeneProduct
UGT74F1 GeneProduct
AGL14 GeneProduct
MPK2 GeneProduct
AT1G21440 GeneProduct
Assigned as OsCCP by Nemeth D and Hanumappa M (10/21/2010) carboxyvinyl-carboxyphosphonate phosphorylmutase
CYP76C3 GeneProduct
AT1G63170 GeneProduct
PGL34 GeneProduct
bZIP16 GeneProduct
AT4G19820 GeneProduct
PAKRP1 GeneProduct
AT1G48630 GeneProduct
CKX2 GeneProduct
CRU2 GeneProduct
ADL6 GeneProduct
ATAPRL6 GeneProduct
ARD1 GeneProduct
AT5G47480 GeneProduct
NAS4 GeneProduct
CYCB1;3 GeneProduct
AT3G55060 GeneProduct
CRU2 GeneProduct
AT2G30460 GeneProduct
AT3G06620 GeneProduct
AT2G18110 GeneProduct
SUS1 GeneProduct
UBC1 GeneProduct
AT4G32000 GeneProduct
PCNA1 GeneProduct
AT4G10390 GeneProduct
SEN2 GeneProduct
SUS1 GeneProduct
ASP1 GeneProduct
BZO2H1 GeneProduct
PP2A-2 GeneProduct
AT2G24420 GeneProduct
WRKY17 GeneProduct
ATSPP1 GeneProduct
AT3G02930 GeneProduct
CRU2 GeneProduct
AtcwINV4 GeneProduct
ORA59 GeneProduct
GSR2 GeneProduct
BHLH100 GeneProduct
ROC1 GeneProduct
AT4G24590 GeneProduct
AT5G61550 GeneProduct
ATKDSA2 GeneProduct
SGT1A GeneProduct
AHA1 GeneProduct
AT3G55940 GeneProduct
ATMYC-2 GeneProduct
FBA1 GeneProduct
C AL GeneProduct
ATHB12 GeneProduct
PSBO1 GeneProduct
AT1G09640 GeneProduct
AT3G61700 GeneProduct
CAL GeneProduct
PP2A-2 GeneProduct
PRB1 GeneProduct
AT4G22240 GeneProduct
AT1G32430 GeneProduct
PP2A-3 GeneProduct
BZO2H1 GeneProduct
AT2G30460 GeneProduct
CYCD4;2 GeneProduct
ATSPP1 GeneProduct
ADK1 GeneProduct
XDH2 GeneProduct
AT1G62660 GeneProduct
ATHB7 GeneProduct
CF1 GeneProduct
ILR1 GeneProduct
HSP40 GeneProduct :LOC_Os03g44620
bHLH60 GeneProduct :LOC_Os08g04390
AGL8 GeneProduct
PPDK GeneProduct
AtkdsA1 GeneProduct
PAP85 GeneProduct
BTB/POZ GeneProduct :LOC_Os10g29390
OCP3 GeneProduct
NB-ARC domain protein GeneProduct :LOC_Os11g34880
ZF-like GeneProduct :LOC_Os01g40990
AT4G19200 GeneProduct
EXPB4 GeneProduct :LOC_Os10g40730
BMY3 GeneProduct
AT1G56700 GeneProduct
SPS1F GeneProduct
IAA31 GeneProduct
AT2G21130 GeneProduct
BMY7 GeneProduct
AT5G50100 GeneProduct
ASKTHETA GeneProduct
AT2G47060 GeneProduct
PMI1 GeneProduct
PCNA2 GeneProduct
GDSL-like Lipase GeneProduct :LOC_Os10g05088
PP2A-1 GeneProduct
SEN1 GeneProduct
SSIV GeneProduct
UGT74F1 GeneProduct
WRKY11 GeneProduct
AT5G35460 GeneProduct
UBC2 GeneProduct
AT5G02230 GeneProduct
AT5G16730 GeneProduct
SAM cmtr GeneProduct :LOC_Os02g06770
Kinesin GeneProduct :LOC_Os03g43100
SS3 GeneProduct
AT1G30230 GeneProduct
PKT3 GeneProduct
AT1G47390 GeneProduct
bZIP68 GeneProduct
eIFiso4G1 GeneProduct
Fructose-6-phosphate 1-phosphotransferase GeneProduct :LOC_Os08g25720
CRU1 GeneProduct
TEM2 GeneProduct
AT2G46140 GeneProduct
GABA permease GeneProduct :LOC_Os01g71720
OsIAA13 GeneProduct :LOC_Os03g53150
AT5G44080 GeneProduct
MPK1 GeneProduct
AT2G05830 GeneProduct
ATERF4 GeneProduct
SNAC1 GeneProduct :LOC_Os03g60080
IDS1/ MT4A GeneProduct :LOC_Os12g38270
GBSSII GeneProduct :LOC_Os07g22930
AT4G25160 GeneProduct
AT3G17850 GeneProduct
AT2G28440 GeneProduct
AT1G56560 GeneProduct
GLT1 GeneProduct
AT2G45300 GeneProduct
APL4/ AGPL4 GeneProduct :LOC_Os07g13980
CYCD4;1 GeneProduct
ATAMY1 GeneProduct
AT5G59010 GeneProduct
SPS-Zm GeneProduct :LOC_Os06g42824
AT5G47490 GeneProduct
Disease resistance-like GeneProduct :LOC_Os12g40490
AT4G31340 GeneProduct
KAB1 GeneProduct
GPA1 GeneProduct
AT1G22410 GeneProduct
AT5G36160 GeneProduct
NAC5 GeneProduct :LOC_Os11g08210
SS3 GeneProduct
AMY3 GeneProduct
NAC2 GeneProduct
AT1G60900 GeneProduct
SPS-So GeneProduct :LOC_Os06g43630
PR1 GeneProduct
CRU1 GeneProduct
ATMTAN2 GeneProduct
RPS20 GeneProduct :LOC_Os06g04290
AT3G44620 GeneProduct
AT1G33260 GeneProduct
ZOS1-15 GeneProduct :LOC_Os01g62190
SEP3 GeneProduct
ATARD2 GeneProduct
MYB33 GeneProduct
ALDH7B4 GeneProduct
DOF ZF GeneProduct :LOC_Os02g49440
WRKY40 GeneProduct
CIB22 GeneProduct
PP2A-B GeneProduct :LOC_Os05g40350
GF14A GeneProduct :LOC_Os08g37490
PROLM26 GeneProduct :LOC_Os07g10580
MT2b GeneProduct :LOC_Os05g02070
IAA1 GeneProduct :LOC_Os01g08320
LOC_Os01g14110 GeneProduct :LOC_Os01g14110
TAP46 GeneProduct
Pit GeneProduct :LOC_Os01g05620
AAP6 GeneProduct
SSII-3 GeneProduct :LOC_Os06g12450
SUS6 GeneProduct
NAC 10 GeneProduct :LOC_Os11g03300
AT5G59210 GeneProduct
Sub9 GeneProduct :LOC_Os01g58290
AT3G60320 GeneProduct
CACTA, En/Spm GeneProduct :LOC_Os01g09220
CDKA-2 GeneProduct :LOC_Os02g03060
PHT4;3 GeneProduct
Oryzain alpha Protease GeneProduct :LOC_Os04g55650
msrB-1 GeneProduct :LOC_Os03g24600
AT5G59750 GeneProduct
UCH3 GeneProduct
PP2A-1 GeneProduct
LOC_Os01g62740 GeneProduct :LOC_Os01g62740
BMY7 GeneProduct
ERF15 GeneProduct
SUVR4 GeneProduct
HCF173 GeneProduct
SPK GeneProduct :LOC_Os10g39420
AG GeneProduct
USP1 GeneProduct :LOC_Os07g47620
LOC_Os03g56940 GeneProduct :LOC_Os03g56940
AT1G06890 GeneProduct
ATBT1 GeneProduct
SPS-Hv GeneProduct :LOC_Os02g09170
AT3G29010 GeneProduct
NAS2 GeneProduct :LOC_Os03g19420
AT1G78420 GeneProduct
GDSL-like Lipase GeneProduct :LOC_Os01g11650
ARF1 GeneProduct :LOC_Os11g32110
AT1G20810 GeneProduct
DEP GeneProduct :LOC_Os11g29370
flavanone 3-hydroxylase GeneProduct :LOC_Os08g37456
BBTI4 GeneProduct :LOC_Os01g03340
HMG1 GeneProduct :LOC_Os06g51220
PPROL 14 E GeneProduct :LOC_Os05g26377
CWINV2 GeneProduct
AGD6 GeneProduct
AGL6 GeneProduct
CRU1 GeneProduct
SUS3 GeneProduct
GRF7 GeneProduct
CDKA1 GeneProduct
anac103 GeneProduct
SUS4 GeneProduct
AT2G46420 GeneProduct
ATAMY1 GeneProduct
prx61 GeneProduct :LOC_Os04g59190
MADS 13 GeneProduct :LOC_Os12g10540
SWEET3 GeneProduct
EMB2729 GeneProduct
sks17 GeneProduct
VIP1-like GeneProduct :LOC_Os06g02240
AREB3 GeneProduct
PPDK GeneProduct
ATPU1 GeneProduct
COL9 GeneProduct
CWINV2 GeneProduct
TUBB3 GeneProduct :LOC_Os06g46000
EFE GeneProduct
AT3G12630 GeneProduct
SVP GeneProduct
KRP3 GeneProduct :LOC_Os11g40030
DMAS1 GeneProduct :LOC_Os03g13390
CIN5 GeneProduct :LOC_Os04g56930
LOC_Os03g07360 GeneProduct :LOC_Os03g07360
RIC1 GeneProduct :LOC_Os01g37800
RBCL GeneProduct
CWINV2 GeneProduct
AT5G52580 GeneProduct
GL3 GeneProduct
AtHsp90.2 GeneProduct
GF14F GeneProduct :LOC_Os03g50290
PSB29 GeneProduct
ADK2 GeneProduct
ALDH10A8 GeneProduct
GPT2 GeneProduct
BEI GeneProduct :LOC_Os06g51084
ING1 GeneProduct
AT1G04770 GeneProduct
AT1G57720 GeneProduct
LOC_Os08g04580 GeneProduct :LOC_Os08g04580
CDF2 GeneProduct
CRL1 GeneProduct :LOC_Os03g05510
VIP1 GeneProduct
CKX4 GeneProduct
EIN3 GeneProduct
PHD Zn-finger GeneProduct :LOC_Os11g12650
AHOX GeneProduct :LOC_Os10g39030
SMT1 GeneProduct
SBE2.2 GeneProduct
MTACP1 GeneProduct
FIB GeneProduct
AT4G33150 GeneProduct
anac075 GeneProduct
ATVDAC2 GeneProduct
LTPL109 GeneProduct :LOC_Os07g37385
NAS3 GeneProduct
scpl40 GeneProduct
BT3 GeneProduct
AT1G14710 GeneProduct
YSL2 GeneProduct :LOC_Os02g43370
RALF24 GeneProduct :LOC_Os11g26340
DUF584 GeneProduct :LOC_Os05g45450
SUS6 GeneProduct
LEC2 GeneProduct
AtPHR1 GeneProduct
AT1G80570 GeneProduct
CYP450 GeneProduct :LOC_Os09g10340
Integrase GeneProduct :LOC_Os11g11694
MADS 1 GeneProduct :LOC_Os03g11614
AT5G53050 GeneProduct
PAKRP1L GeneProduct
WRKY 55 GeneProduct :LOC_Os03g20550
BMY1 GeneProduct
CYCA1;1 GeneProduct
Retrotransposon GeneProduct :LOC_Os12g24050
AT1G56560 GeneProduct
AT1G22040 GeneProduct
AGL19 GeneProduct
HSP70 GeneProduct :LOC_Os12g14070
PP2A-4 GeneProduct
SUT3 GeneProduct :LOC_Os10g26470
SSIV GeneProduct
CYP716A1 GeneProduct
AT5G25940 GeneProduct
AT1G30230 GeneProduct
DPE2 GeneProduct
AT1G63220 GeneProduct
ATARD2 GeneProduct
AtAGAL2 GeneProduct
EDM1 GeneProduct
AT2G35900 GeneProduct
AT4G19810 GeneProduct
ABI3 GeneProduct
AT3G20800 GeneProduct
IAA9 GeneProduct :LOC_Os02g56120
DET3 GeneProduct
GPT2-3 GeneProduct :LOC_Os07g33910
OsPRP1 GeneProduct :LOC_Os10g05970
Amy2A GeneProduct :LOC_Os06g49970
ATAF1 GeneProduct
BT1-2 GeneProduct :LOC_Os02g10800
PMA2 GeneProduct
BHLH039 GeneProduct
AT4G32600 GeneProduct
AT2G35840 GeneProduct
SEP3 GeneProduct
SUS4 GeneProduct
Ubi GeneProduct :LOC_Os09g31031
AGL6 GeneProduct
C3H1 GeneProduct :LOC_Os01g07930
APL2 GeneProduct :LOC_Os01g44220
AT1G74240 GeneProduct
AT5G42740 GeneProduct
MADS 22 GeneProduct :LOC_Os02g52340
CRU1 GeneProduct
ISA1 GeneProduct
E3-Ubi Ligase GeneProduct :LOC_Os05g47780
DUF151 GeneProduct :LOC_Os01g50622
PHS2 GeneProduct
SUS4 GeneProduct
AT1G12760 GeneProduct
ADG1 GeneProduct
CIN4 GeneProduct :LOC_Os01g73580
RB GeneProduct :LOC_Os01g39580
NAC4 GeneProduct :LOC_Os01g60020
AP1 GeneProduct
ISA3 GeneProduct :LOC_Os09g29404
AT1G70820 GeneProduct
CIN7 GeneProduct :LOC_Os09g08072
ATDAD1 GeneProduct
double-stranded beta-helix domain GeneProduct :LOC_Os11g06370
AP3 GeneProduct
Bam 3 GeneProduct :LOC_Os07g35880
AT1G77670 GeneProduct
UGP GeneProduct
RPBF GeneProduct :LOC_Os02g15350
SAL1 GeneProduct :LOC_Os06g43590
ATAMY1 GeneProduct
AT1G11900 GeneProduct
TyrK GeneProduct :LOC_Os11g15340
NFXL1 GeneProduct
AT1G12840 GeneProduct
APS1 GeneProduct :LOC_Os09g12660
GRF7 GeneProduct
ATAMY1 GeneProduct
RACK1A GeneProduct
APT1 GeneProduct
BMY8 GeneProduct
ATHB7 GeneProduct
WCRKC1 GeneProduct
AT3G29320 GeneProduct
). None
AT2G36950 GeneProduct
ADG2 GeneProduct
Sci2 GeneProduct :LOC_Os01g42860
PSBC GeneProduct
b-1,3-Glucanase GeneProduct :LOC_Os03g25790
ICL GeneProduct
AGL44 GeneProduct
NFU4 GeneProduct
ENODL9 GeneProduct
Oryzain gamma Protease GeneProduct :LOC_Os09g27030
AT1G57720 GeneProduct
BZO2H4 GeneProduct
UBP23 GeneProduct
SUT2 GeneProduct
Flavin containing monooxygenase 3-like GeneProduct :LOC_Os09g37620
Ghd7 GeneProduct :LOC_Os07g15770
AT3G15670 GeneProduct
PGI1 GeneProduct
Wx1 GeneProduct :LOC_Os06g04200
AT1G06890 GeneProduct
AP1 GeneProduct
ABI5 GeneProduct
ATXDH1 GeneProduct
AT4G17100 GeneProduct
AT2G36950 GeneProduct
RAR1 GeneProduct
SUT1 GeneProduct :LOC_Os03g07480
AT1G55550 GeneProduct
CSN5A GeneProduct
PROLM 24 GeneProduct :LOC_Os06g31070
IMPA-2 GeneProduct
APRL4 GeneProduct
Rac GeneProduct :LOC_Os01g12900
AT2G25220 GeneProduct
PAT1 GeneProduct
ATAMY1 GeneProduct
STA1 GeneProduct
Sci2 GeneProduct :LOC_Os01g42860
AT2G39300 GeneProduct
PIP5K9 GeneProduct
BZO2H4 GeneProduct
AT3G15670 GeneProduct
DPK4 GeneProduct :LOC_Os06g45300
CRP GeneProduct
Luc7-like 2 GeneProduct :LOC_Os03g62640
Jasmonate-induced protein GeneProduct :LOC_Os12g09700
EM6 GeneProduct
SBEIIa GeneProduct :LOC_Os04g33460
AT4G03500 GeneProduct
BMY3 GeneProduct
FBA2 GeneProduct
CRU1 GeneProduct
RCA GeneProduct
PPDK GeneProduct
PSAD-1 GeneProduct
SSIV GeneProduct
AT2G17550 GeneProduct
PBZ1 GeneProduct :LOC_Os12g36880
AT1G47640 GeneProduct
AT3G29130 GeneProduct
MADS 5 GeneProduct :LOC_Os06g06750
GLN1;1 GeneProduct
MPK5 GeneProduct :LOC_Os03g17700
GCPE GeneProduct
SCL8 GeneProduct
CYP76C2 GeneProduct
TRAB1 GeneProduct :LOC_Os08g36790
YSL15 GeneProduct :LOC_Os02g43410
IREG2 GeneProduct
LOC_Os03g55130 GeneProduct :LOC_Os03g55130
BMY2 GeneProduct
PSAK GeneProduct
SSI1 GeneProduct
EXPB2 GeneProduct :LOC_Os10g40710
AT3G05500 GeneProduct
Bam 8 GeneProduct :LOC_Os01g13550
PLC2 GeneProduct
SUT5 GeneProduct :LOC_Os02g36700
At-A/N-InvE GeneProduct
AT5G05010 GeneProduct
SSII-2 GeneProduct :LOC_Os02g51070
Terpene cyclases GeneProduct :LOC_Os04g27190
MCM2 GeneProduct
RAB18 GeneProduct
TCH2 GeneProduct
GRF7 GeneProduct
UGP GeneProduct
ATGSNOR1 GeneProduct
AT3G01490 GeneProduct
ELF9 GeneProduct
AT5G53390 GeneProduct
SSP5 GeneProduct
FKF1 GeneProduct
AT1G77060 GeneProduct
Assigned as OsCCP by Nemeth D and Hanumappa M (10/21/2010) carboxyvinyl-carboxyphosphonate phosphorylmutase
JA cmtr GeneProduct :LOC_Os06g22440
ISA2 GeneProduct
BMY9 GeneProduct
PROLM28 GeneProduct :LOC_Os12g16890
PUM8 GeneProduct
ZIP10 GeneProduct
ATOPT3 GeneProduct
AT5G49710 GeneProduct
AT4G32260 GeneProduct
CRU1 GeneProduct
MLA10 GeneProduct :LOC_Os11g16470
RPK-TMK1 precursor GeneProduct :LOC_Os04g58910
PI GeneProduct
AT1G67890 GeneProduct
DIP1 GeneProduct :LOC_Os05g34070
EBP89 GeneProduct :LOC_Os03g08460
SUT4 GeneProduct
CYCB1;2 GeneProduct
AT2G35840 GeneProduct
AT4G24060 GeneProduct
UNE10 GeneProduct
APL1 GeneProduct :LOC_Os05g50380
CTR1-like GeneProduct :LOC_Os09g39320
DREB1B GeneProduct :LOC_Os09g35010
RUBQ1 GeneProduct :LOC_Os02g06640
ALDH11A3 GeneProduct
AT1G27461 GeneProduct
AT1G76660 GeneProduct
SS2 GeneProduct
AT2G42130 GeneProduct
PSBO2 GeneProduct
LOC_Os04g53350 GeneProduct :LOC_Os04g53350
CRINKLY4 GeneProduct :LOC_Os08g28710
RAG-1 GeneProduct :LOC_Os09g16260
CR4 GeneProduct
SSA1 GeneProduct :LOC_Os05g41970
APG2 GeneProduct
DPE1 GeneProduct
LOC_Os02g53890 GeneProduct :LOC_Os02g53890


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