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 AT3G46870 317 / 7e-110 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62350 159 / 1e-48 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G09320 81 / 3e-17 VPS9B Vacuolar sorting protein 9 (VPS9) domain (.1) AT5G48730 61 / 2e-10 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G13040 58 / 2e-09 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT4G20090 58 / 2e-09 EMB1025 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G39620 57 / 2e-09 ATPPR5, EMB2453 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT2G17670 57 / 2e-09 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT1G77340 57 / 2e-09 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G41170 57 / 3e-09 Pentatricopeptide repeat (PPR-like) 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 Lus10040756 [exp] 464 / 6e-168 AT3G46870 349 / 2e-122 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10000892 [exp] 186 / 2e-58 AT1G62350 318 / 3e-111 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10036049 [exp] 184 / 9e-58 AT1G62350 316 / 1e-110 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10043104 [exp] 64 / 2e-11 AT3G16890 720 / 0.0 pentatricopeptide (PPR) domain protein 40 (.1) Lus10006373 [exp] 63 / 5e-11 AT3G53700 1012 / 0.0 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012328 [exp] 63 / 5e-11 AT3G53700 1010 / 0.0 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10032647 [exp] 62 / 8e-11 AT3G16890 464 / 1e-159 pentatricopeptide (PPR) domain protein 40 (.1) Lus10036633 [exp] 60 / 8e-11 AT4G39620 218 / 9e-69 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10011849 [exp] 62 / 9e-11 AT5G48730 681 / 0.0 Pentatricopeptide repeat (PPR) superfamily 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.009G038200 [exp] 338 / 2e-118 AT3G46870 326 / 2e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G275000 [exp] 176 / 2e-54 AT1G62350 274 / 7e-94 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.007G134300 [exp] 102 / 6e-26 AT5G09320 114 / 1e-28 Vacuolar sorting protein 9 (VPS9) domain (.1) Potri.009G169600 [exp] 69 / 1e-13 AT5G09320 219 / 8e-67 Vacuolar sorting protein 9 (VPS9) domain (.1) Potri.002G243600 [exp] 64 / 1e-11 AT5G48730 691 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.006G257300 [exp] 63 / 3e-11 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G025600 [exp] 63 / 5e-11 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.006G242500 [exp] 62 / 8e-11 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074500 [exp] 62 / 1e-10 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 61 / 1e-10 AT1G62930 475 / 3e-161 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	>Lus10016476 pacid=23144910 polypeptide=Lus10016476 locus=Lus10016476.g ID=Lus10016476.BGIv1.0 annot-version=v1.0 ATGGCGATTCGCGCCTTTTCGAGGTCAAGAATCTCGCGGACTGCCGTGGCTTCGTTCTTTCAGAGCACGCCGCATAATCCTACAAAACTAAGTCCGGCAT TTGTGCAGTCCCCGATTCCATCACTAGACTCGAATGTTCCTACCAGTTCACTATCCGGGCTCAGGCAATATCACGATGGCCGACCCAGAGGACCTCTCTG GAGAGGCAAGAAGCTGATAGGTAAAGAGGCGCTCTTTGTGATAATGGGGTTAAAGCGCTTCAAGGACGAAGAAGAAAAGCTCGACAAGTTCATCAAAACG CATGTTAACAGACTGCTGAAGGTGGACATGGTTGCTGTCGTCTGCGAGCTCGAGCGCCAAAATGAAGTCACCCTGGCCGTTAAGATATTTCAACTAATAC AGAAGCAAGACTGGTACACGCCGGATCGCTATATTTACAAGGACCTGATAGTTGCGTTAACGAAATCCAACAAAATGGATGAAGCAATGAAGCTGTGGCA GTCTATGAGGGACGAGGGTCTTTTTCCTGATTCCCAAATGTACACTGAAGTCATCAGGGGTTTCTTGAGGGATGGATCCCCTGCTGATGCGATGAACGTG TACGAAGACATGAAGGAATCGCCTGATCCTCCGGAGGAATTGCCTTTCAGGATTTTGTTGAAGGGCCTTCTGCCGCACCCGCTTTTGAGGAACAGAGTTA AGCAAGACTACGAAGAGTTATTTCCCGAGAAGAATGTCTTTGATCCTCCAGAAGAGATATTTGGCATGCACTGA
AA sequence Show only first row Show all	>Lus10016476 pacid=23144910 polypeptide=Lus10016476 locus=Lus10016476.g ID=Lus10016476.BGIv1.0 annot-version=v1.0 MAIRAFSRSRISRTAVASFFQSTPHNPTKLSPAFVQSPIPSLDSNVPTSSLSGLRQYHDGRPRGPLWRGKKLIGKEALFVIMGLKRFKDEEEKLDKFIKT HVNRLLKVDMVAVVCELERQNEVTLAVKIFQLIQKQDWYTPDRYIYKDLIVALTKSNKMDEAMKLWQSMRDEGLFPDSQMYTEVIRGFLRDGSPADAMNV YEDMKESPDPPEELPFRILLKGLLPHPLLRNRVKQDYEELFPEKNVFDPPEEIFGMH

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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
AT3G46870			Pentatricopeptide repeat (PPR)...		Lus10016476 [exp]	0	1
AT1G05750		PDE247, CLB19	pigment defective 247, Tetratr...		Lus10013341 [exp]	2.8	0.8875
AT4G18520			Pentatricopeptide repeat (PPR)...		Lus10029482 [exp]	6.2	0.8414
AT4G02750			Tetratricopeptide repeat (TPR)...		Lus10002092 [exp]	6.6	0.8109
AT4G18750		DOT4	DEFECTIVELY ORGANIZED TRIBUTAR...		Lus10039703 [exp]	6.6	0.8265
AT4G18520			Pentatricopeptide repeat (PPR)...		Lus10039594 [exp]	7.9	0.8367
AT4G21065			Tetratricopeptide repeat (TPR)...		Lus10005207 [exp]	8.5	0.8212
AT1G15510		VAC1, ATECB2	VANILLA CREAM 1, ARABIDOPSIS E...		Lus10025009 [exp]	10.0	0.8220
AT2G37320			Tetratricopeptide repeat (TPR)...		Lus10009070 [exp]	12.4	0.8199
					Lus10029579 [exp]	12.7	0.8141
AT5G13230			Tetratricopeptide repeat (TPR)...		Lus10038839 [exp]	13.0	0.8153

Compare expression of checked genes

Lus10016476 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.