Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser]
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT2G38420 359 / 3e-120 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G09900 161 / 3e-43 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT5G64320 160 / 1e-42 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G11690 152 / 2e-40 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G05670 151 / 3e-39 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) AT3G53700 151 / 3e-39 MEE40 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G04760 149 / 5e-39 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT5G39710 150 / 7e-39 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 145 / 9e-38 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G64580 144 / 1e-37 Pentatricopeptide repeat (PPR) superfamily protein (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10001256 [exp] 837 / 0 AT2G38420 403 / 8e-137 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10019697 [exp] 460 / 2e-162 AT2G38420 181 / 5e-54 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027267 [exp] 149 / 2e-38 AT1G74580 813 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027916 [exp] 147 / 5e-38 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10038974 [exp] 145 / 2e-37 AT1G74580 911 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027914 [exp] 144 / 1e-36 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10039056 [exp] 143 / 1e-36 AT5G64320 832 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10036020 [exp] 142 / 4e-36 AT5G61990 592 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10023863 [exp] 142 / 4e-36 AT5G12100 728 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1)
Poplar homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.006G106400 [exp] 499 / 2e-174 AT2G38420 428 / 1e-146 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G046000 [exp] 165 / 3e-44 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G050400 [exp] 158 / 3e-42 AT1G12700 504 / 3e-171 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.015G121700 [exp] 156 / 3e-41 AT4G19890 923 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.009G105600 [exp] 155 / 1e-40 AT5G39710 1022 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G025600 [exp] 153 / 5e-40 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G032600 [exp] 151 / 1e-39 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G047000 [exp] 150 / 1e-39 AT3G04760 781 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.010G035700 [exp] 151 / 3e-39 AT1G05670 922 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) Potri.005G046100 [exp] 150 / 3e-39 AT1G12700 512 / 1e-173 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [flax] [poplar] TPR PF01535 [flax] [poplar] PPR PPR repeat
Representative CDS sequence Show only first row Show all	>Lus10002476 pacid=23170174 polypeptide=Lus10002476 locus=Lus10002476.g ID=Lus10002476.BGIv1.0 annot-version=v1.0 ATGCAATCTCTGAAACAACAAGCGGCCGCCGCCGCAGCATCACAACCTACACCCTCCTCCTCTGGCAACCTCCTCTCATCTCTGATTCAATCCTTCACCA TCTACAACTGCCACCCAACTCCACAAGCTTATCACTTTATCTTCAAAACCATGGCCAAAACCTCCCAGCTCCACCAAATCCCACCACTCCTCGACCACCT GGAAAAAACCGAGCAGTTCGAAACCCCGGAGCTCATCCTTGCCGATCTCATTAAAATCTACTGTGAATCGAACCAAATTGAAAAAGCCGTCAACTTCTTC TTCAGGATCCCCAAGTTCAGGTGCGCTCCTACTGCAATTTCTCTCAACACTTTGCTCGGTTTCCTCTGTAGAACAAAATCAGGGCTCAAGTTGGTTCCAG AAGTTCTGCTAAAGAGTCGAGAGTTGAACGTCCGTGTGGAGGAATCGAGCTTTCGGATACTGATCACCGCTCTCTGTAGAGTAAATCGGGTAAGCCACGC GATTGAGATGTTCCACCGCATGATCGACGAGGGATTCGTCGTCGGAGTCGGAGAAGAGATATGCTCTTTCTTGCTATCGTCGCTTTGCGAACAAACGGAT GTTTTGAGTGCCGATGTAATTGGATTCTTCGGGGAGCTGAGAAAGCTAGGATTTGTTCCAGGGTTGATAGACTACACCAATGTGATTAGGTTCTTGGTTA GAGAAGGAGACGGAGTTGAAGCTGTGAATGTTCTTAATCAGGTGAAATCAGACGGGATCAAGCCTGATATAGTCTGCTACAATTTGGTTCTGAAAGGGTT AGTCTTCATCCAGGAGTTTGAATTAGCAGATAACCTATTCGACGAATTGCTTCTGTATGGATTGGTCCCTGATATCCGTACTTACAATATCTACATAGAC GGATTCTGCAAGCAAGGCAAGATGGAAAGTGGAATCAAGATGGTTGAATCAATGCAGCAACTGGGATGCAAGCCTGATCTCAACACTTACAATACGTTAC TAGCTGCACTGAGTGAAGATGGAAACTTTGGTGGTGCAAGGGAGCTGGTGAGGGAGATGGGTAAGAAGGGAATCGGATGGAATACAAAGACGTATGAGAT TATGATCGATCTGTTGAGTAGGTGTGGAGAAATGGCGGAAGCTTGTGCTTTGGTGGAGGAAGCATTGGGGAAAGGGTTGTTGGATGATGTTGTGGCTGCT GAGAATTTGGTTTGTGGGTTGTGTAGAAAGGGATTGATGGATGATGCTGTGGGATTGGTTACTAAAATGGTGGAAAGGAATGTTGGTCCTGGAGCTAGAG CTTGGGAAGCGATCCTTTTGGGGTTGGGGTTCAAGGTTGAATGTTCAGGAACTGGGTTTGGTGGATTGTTGCTGGATGTGCATAGTGCAGACACAGTTCA TTGTGAAGATTGA
AA sequence Show only first row Show all	>Lus10002476 pacid=23170174 polypeptide=Lus10002476 locus=Lus10002476.g ID=Lus10002476.BGIv1.0 annot-version=v1.0 MQSLKQQAAAAAASQPTPSSSGNLLSSLIQSFTIYNCHPTPQAYHFIFKTMAKTSQLHQIPPLLDHLEKTEQFETPELILADLIKIYCESNQIEKAVNFF FRIPKFRCAPTAISLNTLLGFLCRTKSGLKLVPEVLLKSRELNVRVEESSFRILITALCRVNRVSHAIEMFHRMIDEGFVVGVGEEICSFLLSSLCEQTD VLSADVIGFFGELRKLGFVPGLIDYTNVIRFLVREGDGVEAVNVLNQVKSDGIKPDIVCYNLVLKGLVFIQEFELADNLFDELLLYGLVPDIRTYNIYID GFCKQGKMESGIKMVESMQQLGCKPDLNTYNTLLAALSEDGNFGGARELVREMGKKGIGWNTKTYEIMIDLLSRCGEMAEACALVEEALGKGLLDDVVAA ENLVCGLCRKGLMDDAVGLVTKMVERNVGPGARAWEAILLGLGFKVECSGTGFGGLLLDVHSADTVHCED

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DESeq2's median of ratios [FLAX]

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Coexpressed genes

Compare expression of checked genes Schematic diagram [FLAX] Schematic diagram [POPLAR]

*If you select 4 or less genes and then press "compare expression", expression will be shown as a graph. If you select more than 4 genes, expresion will be shown as a heat map.
*Color represents relative expression level among samples for each gene.

At best	At TF class	At alias	At description		Locus	MR	r	Symbol	HYP	R_s2_CTR	R_s2_Fox	R_s4_CTR	R_s4_Fox	R_r1_CTR	R_r1_Fox	R_r3_CTR	R_r3_Fox	R_r1s2_CTR	R_r1s2_Fox	R_r3s2_CTR	R_r3s2_Fox	R_s6_CTR	R_s6_Al4	R_s6_Al12	R_s6_Al24	R_s8_CTR	R_s8_Al4	R_s8_Al12	R_s8_Al24	R_r5_CTR	R_r5_Al4	R_r5_Al12	R_r5_Al24	R_r7_CTR	R_r7_Al4	R_r7_Al12	R_r7_Al24	LEAF_N	LEAF_P	LEAF_NPK	SAM	AR_Bet	AR_rdf	cPAR	TOP_Bet	TOP_rdf	iFIBa	iFIBb	MID_Bet	MID_rdf	tFIBa	tFIB_Gr	tFIB_Li	tFIB_Bi	tFIBb	tFIBb_PUL8	tFIBb_PUL24	tFIBb_PUL96	tFIBb_OPP8	tFIBb_OPP24	tFIBb_OPP96	sXYLa	sXYLb	sXYLb_PUL8	sXYLb_PUL24	sXYLb_PUL96	sXYLb_OPP8	sXYLb_OPP24	sXYLb_OPP96
AT2G38420			Pentatricopeptide repeat (PPR)...		Lus10002476 [exp]	0	1
AT4G30080	ARF	ARF16	auxin response factor 16 (.1)		Lus10023519 [exp]	3.3	0.8611
AT1G06820		CCR2, CRTISO	CAROTENOID AND CHLOROPLAST REG...		Lus10029347 [exp]	5.5	0.8533
AT3G60810			unknown protein		Lus10030273 [exp]	13.6	0.8562
AT1G64810		APO1	ACCUMULATION OF PHOTOSYSTEM ON...		Lus10039122 [exp]	18.7	0.8049
AT3G63410		VTE3, APG1, IEP...	VITAMIN E DEFECTIVE 3, INNER E...		Lus10024832 [exp]	31.0	0.8268
AT5G65820			Pentatricopeptide repeat (PPR)...		Lus10011566 [exp]	60.8	0.7904
AT4G01037		AtWTF1	what's this factor?, Ubiquitin...		Lus10005945 [exp]	63.0	0.8003
AT5G19940			Plastid-lipid associated prote...		Lus10042448 [exp]	65.2	0.7995
AT3G62000			S-adenosyl-L-methionine-depend...		Lus10036339 [exp]	73.8	0.7940
AT4G23900			Nucleoside diphosphate kinase ...		Lus10001824 [exp]	77.0	0.7548

Compare expression of checked genes

Lus10002476 coexpression network

*The number of genes in the network is adjusted within 50 genes.
*Gene name represents symbol(s) of closest Arabidopsis gene if symbol(s) for the gene itself doesn't exist.
*Circle diameter represents the number of connection with other genes within this network.
*Color for gene name represents subnetwork based on the result of network clustering.