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 AT1G62930 161 / 3e-45 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 154 / 9e-43 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 153 / 3e-42 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 151 / 9e-42 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G65560 152 / 2e-41 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 150 / 2e-41 RPF2 rna processing factor 2 (.1) AT1G63070 148 / 1e-40 pentatricopeptide (PPR) repeat-containing protein (.1) AT5G41170 147 / 1e-40 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G62680 146 / 4e-40 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G31850 147 / 9e-40 PGR3 proton gradient regulation 3 (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10003433 [exp] 402 / 3e-138 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 396 / 8e-136 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014242 [exp] 390 / 1e-135 AT1G62930 256 / 5e-78 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014244 [exp] 390 / 2e-133 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 389 / 3e-133 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10021074 [exp] 367 / 4e-127 AT1G62930 273 / 5e-86 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003446 [exp] 336 / 1e-117 AT1G62930 137 / 2e-37 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003447 [exp] 313 / 2e-103 AT1G12700 202 / 1e-56 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 270 / 7e-87 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.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.013G034300 [exp] 199 / 6e-61 AT1G62930 397 / 4e-133 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G257300 [exp] 199 / 2e-59 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.014G117600 [exp] 196 / 3e-59 AT1G12700 330 / 1e-105 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074700 [exp] 196 / 8e-59 AT1G62930 481 / 1e-164 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242500 [exp] 196 / 3e-58 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G045000 [exp] 195 / 5e-58 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G021200 [exp] 194 / 6e-58 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G149800 [exp] 194 / 2e-57 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G034400 [exp] 193 / 3e-57 AT3G22470 476 / 1e-161 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.004G074500 [exp] 191 / 2e-56 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.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	>Lus10003429 pacid=23164884 polypeptide=Lus10003429 locus=Lus10003429.g ID=Lus10003429.BGIv1.0 annot-version=v1.0 ATGAAGGATAGAAAATGTTCACCAAATGTTGTTAGTTACAGTTGTTTGATTCATGGTTTATGTGCTTCAAGTCGGAAGAATGAAGCTATATTGTTGTTCG GTGAAATGTTAGAAATGAATGTCATTCCTAATGTAGTCACCTATACCATTCTGATCGATTCTCTTTGCAAAGATGGAATGGTCCGTGAGGCTAAAGCTAT AGTCAAAGTGATGATGCAAAATGGACAACATTCGGATATCGTCACTTACAATTCATTGCTGGATGGGTATTGTTTGCGTAATGAATTAGACAAAGCTCGT AACTTGTTCAATTGTTTAGGTCATCTGGACAAGGCATTAGCTCTATTCCAAGAAATAAAAAGTAGTCGGTTGAAGCCTGATGTTGTCACGTATAATATTC TTATTGGCAGTTTGTGGAAAGCAGGAAGGGGTAAGGAAGCAAGGGACATGTTTTCTGAGCTCTCTAAAGAAAGGGATTTACAACCTAATTCCTACACATA CAACACAGTAATTGATGGACTTTGTAGGCATGGTTTAGTAGATGAGGCATATGATTTGTTTAGAACAATGGAGAGAAGTATATTCCCGCCAGATATTTGC ACTTATAATGTGATCATCCATGGATTTCTTCGATATAAAGATCCACTTGAAGCAGTAGAGCTAATTCAAGAGATGGTGAATAAGGGCTTCTCAGCTGATG CAGCTCCATTAGCCTTGCTGATAGAATTGTTGCCCAAAAACCAGCTAGATCATCCACTTTGGAGAAAGCTCTTAGGTGATTCTTATGTGGATAGAGAAGA GATTAGGTCTGAGGGTATATCAGCAGAAAAAACCTCAAAAGATTAG
AA sequence Show only first row Show all	>Lus10003429 pacid=23164884 polypeptide=Lus10003429 locus=Lus10003429.g ID=Lus10003429.BGIv1.0 annot-version=v1.0 MKDRKCSPNVVSYSCLIHGLCASSRKNEAILLFGEMLEMNVIPNVVTYTILIDSLCKDGMVREAKAIVKVMMQNGQHSDIVTYNSLLDGYCLRNELDKAR NLFNCLGHLDKALALFQEIKSSRLKPDVVTYNILIGSLWKAGRGKEARDMFSELSKERDLQPNSYTYNTVIDGLCRHGLVDEAYDLFRTMERSIFPPDIC TYNVIIHGFLRYKDPLEAVELIQEMVNKGFSADAAPLALLIELLPKNQLDHPLWRKLLGDSYVDREEIRSEGISAEKTSKD

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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
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Lus10003429 [exp]	0	1
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014244 [exp]	1.0	0.8499
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014245 [exp]	2.0	0.8204
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10003427 [exp]	2.8	0.8142
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10003433 [exp]	5.5	0.8151
					Lus10004492 [exp]	66.1	0.6875
AT1G68930			pentatricopeptide (PPR) repeat...		Lus10037799 [exp]	69.1	0.7113
AT5G15010			Tetratricopeptide repeat (TPR)...		Lus10021991 [exp]	75.1	0.6928
AT4G00020		BRCA2(IV), BRCA...	MATERNAL EFFECT EMBRYO ARREST ...		Lus10017786 [exp]	99.1	0.6945
					Lus10001500 [exp]	140.8	0.6393
AT4G38120			ARM repeat superfamily protein...		Lus10033267 [exp]	246.4	0.6215

Compare expression of checked genes

Lus10003429 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.