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 AT1G74580 899 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G64320 330 / 3e-102 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G53700 328 / 2e-101 MEE40 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 307 / 8e-95 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 305 / 3e-94 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 298 / 1e-91 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 290 / 2e-88 RPF2 rna processing factor 2 (.1) AT1G12300 290 / 3e-88 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62930 288 / 1e-87 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63150 287 / 2e-87 Tetratricopeptide repeat (TPR)-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 Lus10027267 [exp] 839 / 0 AT1G74580 813 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10039056 [exp] 338 / 4e-105 AT5G64320 832 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012328 [exp] 309 / 5e-94 AT3G53700 1010 / 0.0 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10006373 [exp] 302 / 2e-91 AT3G53700 1012 / 0.0 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10014245 [exp] 286 / 4e-87 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10027914 [exp] 289 / 1e-86 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10019524 [exp] 290 / 3e-86 AT3G54980 716 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10023863 [exp] 286 / 2e-85 AT5G12100 728 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10012068 [exp] 289 / 9e-85 AT5G39710 1028 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like 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.010G234500 [exp] 1028 / 0 AT1G74580 1034 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.006G015900 [exp] 336 / 7e-105 AT5G64320 878 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G032600 [exp] 327 / 3e-102 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046000 [exp] 323 / 4e-100 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.015G105400 [exp] 326 / 3e-98 AT5G61990 773 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G034200 [exp] 303 / 1e-93 AT1G12700 511 / 6e-174 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.001G276500 [exp] 303 / 3e-92 AT5G01110 863 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G045000 [exp] 299 / 7e-92 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G038400 [exp] 296 / 5e-91 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 297 / 2e-90 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) 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	>Lus10038974 pacid=23150264 polypeptide=Lus10038974 locus=Lus10038974.g ID=Lus10038974.BGIv1.0 annot-version=v1.0 ATGATTGAGAAGCTAGGGAGCCACGGTCAATTCGAGGCAATGGAACAAGTGCTCATGGAGACGAGGATGAATGTTGATAACAATTTGCTGGAAGGAGTGT ACGTAGGAGCTATGAGGAACTATGGCAAGAAAGGGAGAGTTCAAGAAGCCGTTGATGTTTTCGAGAGGATGGACTTCTATAACTGCGAGCCGTCGGTTCT ATCTTACAATGCCATTATGAGCATATTGGTCGAGTATGGACATTACAATCAAGTGCATAAAGTTTACTTGAGAATGAAGGATAAAGGAATCACTCCTGAT GTCTATACTTTCACGATTCGGATAAAGTCCTTCTGCAAGACCGAAAGGCCTCATGCTGCTTTAAGGCTTTTGAACAACATGGCTTCTCAAGGGTGTGAAG TTAATGCTGTTGCGTATTGTACCATCATTGGTGGATTTTATGATCGGAATTGTCCTCTTGCTGCGTACGATCTCTTCAATAGGATGCTTGCTTTGGATAT ATTTCCAGAAAATGTTACGTTTAACAAACTTGTGCATGCCCTTTGTAAGAAGGGGGAAATCCGGGAAAGCGAGAAGCTAATTAATAAGGTGCTTAAGAAA GGATTCTGTCCGAATTTGTATACAGTTAACATCTTCATTCAAGGGCTTTGTAGAGCAGGTGCACTACACAGCGCTGTCAATATGTTGGATGGCATGAACA AAGAAGGCCTAGTTCCTGATGTTGTAACCTACAACACTTTAATTTCCGGTTTGTGTAAGAGCAATAAAGTCACTGAAGCCGAGAACTACTTGCATAAGAT GGTGAATGCAGGACTCGATCCTGATGCCTTTACTTACAACACTGTCATTCATGGATATTGCAAACTTGGTTTGATGCCAAATGCTGACAAAATTCTCCGC GATGCAGTCTTCAAGGGCTTCGTGCTAGATGAATTCACTTATTGTGCTTTAATCACGGGATTGTGCAAGGAACATCTCGTAGATCGGGCATTTTCTCTTT TCCGCAAGGCTACGGGGAAAGGAGGCTTGAAGCCTAAGGTTATTCTCTATAATACACTAGTTAAAGGATTGTGTCAACAAGGACATATTCTTCAAGCCTT GGATTTGATGGGCGAGATGTCGGGGAAAGATTGCAATCCCGATACGTGGACTTACAATCTACTCATAGATGGATTGTGTAAGATGGGGTGCGTCTCTGAT GCCGGTAATCTCATGAACGATGCTATTGCGAAAGGCTGTATTCCGGATATTTTTACGTTCAATACATTACTAGACGGGTTCTGCAAACAGTTGAAAATGG AGAATGCTATTGAGCTTCTACATAGCATGGGGAATCATGATATCTCGCCCGATGTCATCACGTATAATACTCTATTGAACGGTCTATGCAAGTCTGGAAA ATCCGAAGATGTCATGGAAACGTTCAAGATGATGTTGGAGAGAGGATGTGTTCCTAATTTAATCACCTACAGTATACTGATAGAGAGCCTCTGCAAATCT AGGAAAGTGAACAAGGGTATGGAGTTACTCGAGGAAATCAGGGGGAAAGGTCTGGTTCCGGACACTGTCAGCTATGGAACTGTCATCAACGGTCTCTGCA ACATCGGTGATTTGGATAGAGCATACGATCTTTTCGAAAGAATGAATCGAGAATACAACATCGTTCACACGACATCCACGTTCAATATTATGATCAATGG TTTTGCCGAGAAGCTGAATGTTGAAATGGCGGAAAAGCTTTTCTATCGGATGTGCAGTCCGGATGACTATACGTACCGTGTGATGATTGATGGTTTCTGC AAGGTATGGAAGATCGACTCTGCGTATAAGTTTCTTGTGGAGATGATAAAGCATCGGTTTGTTCCATCGTTAACGACGTTTGGAAGAGTGGTCAATTGTC TGTGTGTGCAAGATCGAGTTAGCGATGCTGTTAGAATAGTCCATTTAATGGTGAGAAATGGATTTGTGCCGGAGGTTGTGGATACTATTTTCGAGGCTGA TAAAAGAGCAGTTGCGGCGCCCAAGATTGTTGTTGAGGATTTGCTGAAGAAAGGTTGTATCACTTACTATGCTTATGAACTTCTGTATGATGGTATTAGA GATAAAAAGTTGCTAAAGAAGAAAGGTTCCGGTTCCCCAAAAGCTTACCCCCGGAAGGTCTCGCATCACGCTGGTTGA
AA sequence Show only first row Show all	>Lus10038974 pacid=23150264 polypeptide=Lus10038974 locus=Lus10038974.g ID=Lus10038974.BGIv1.0 annot-version=v1.0 MIEKLGSHGQFEAMEQVLMETRMNVDNNLLEGVYVGAMRNYGKKGRVQEAVDVFERMDFYNCEPSVLSYNAIMSILVEYGHYNQVHKVYLRMKDKGITPD VYTFTIRIKSFCKTERPHAALRLLNNMASQGCEVNAVAYCTIIGGFYDRNCPLAAYDLFNRMLALDIFPENVTFNKLVHALCKKGEIRESEKLINKVLKK GFCPNLYTVNIFIQGLCRAGALHSAVNMLDGMNKEGLVPDVVTYNTLISGLCKSNKVTEAENYLHKMVNAGLDPDAFTYNTVIHGYCKLGLMPNADKILR DAVFKGFVLDEFTYCALITGLCKEHLVDRAFSLFRKATGKGGLKPKVILYNTLVKGLCQQGHILQALDLMGEMSGKDCNPDTWTYNLLIDGLCKMGCVSD AGNLMNDAIAKGCIPDIFTFNTLLDGFCKQLKMENAIELLHSMGNHDISPDVITYNTLLNGLCKSGKSEDVMETFKMMLERGCVPNLITYSILIESLCKS RKVNKGMELLEEIRGKGLVPDTVSYGTVINGLCNIGDLDRAYDLFERMNREYNIVHTTSTFNIMINGFAEKLNVEMAEKLFYRMCSPDDYTYRVMIDGFC KVWKIDSAYKFLVEMIKHRFVPSLTTFGRVVNCLCVQDRVSDAVRIVHLMVRNGFVPEVVDTIFEADKRAVAAPKIVVEDLLKKGCITYYAYELLYDGIR DKKLLKKKGSGSPKAYPRKVSHHAG

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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
AT1G74580			Pentatricopeptide repeat (PPR)...		Lus10038974 [exp]	0	1
AT1G15520		ATABCG40, ABCG4...	Arabidopsis thaliana ATP-bindi...		Lus10024063 [exp]	3.5	0.8432
AT1G21700		CHB4, ATSWI3C	SWITCH/sucrose nonfermenting 3...		Lus10026334 [exp]	6.3	0.8554
AT5G47010		ATUPF1, UPF1, L...	LOW-LEVEL BETA-AMYLASE 1, RNA ...		Lus10011054 [exp]	14.0	0.8519
AT1G80680		NUP96, SAR3, MO...	PRECOCIOUS, MODIFIER OF SNC1,3...		Lus10007993 [exp]	18.3	0.8403
AT5G47010		ATUPF1, UPF1, L...	LOW-LEVEL BETA-AMYLASE 1, RNA ...		Lus10003024 [exp]	18.6	0.8496
					Lus10021411 [exp]	24.2	0.8204
AT5G13010		EMB3011	embryo defective 3011, RNA hel...		Lus10000873 [exp]	25.5	0.8297
AT5G42950			GYF domain-containing protein ...		Lus10012078 [exp]	27.0	0.8374
AT1G21610			wound-responsive family protei...		Lus10028676 [exp]	28.0	0.8188
AT1G69290			Pentatricopeptide repeat (PPR)...		Lus10037077 [exp]	28.8	0.8025

Compare expression of checked genes

Lus10038974 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.