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 340 / 4e-109 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 335 / 3e-107 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 335 / 3e-107 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 331 / 1e-105 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 330 / 3e-105 RPF2 rna processing factor 2 (.1) AT1G63080 328 / 1e-104 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63150 327 / 6e-104 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63330 319 / 8e-102 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 319 / 5e-101 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G12300 318 / 9e-101 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 Lus10014245 [exp] 766 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 750 / 0 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 723 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014242 [exp] 664 / 0 AT1G62930 256 / 5e-78 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10022861 [exp] 545 / 0 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 531 / 0 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10009201 [exp] 517 / 0 AT1G12700 274 / 3e-86 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 440 / 2e-149 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10029737 [exp] 442 / 1e-147 AT1G63130 424 / 6e-140 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.005G046000 [exp] 393 / 7e-129 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G038400 [exp] 390 / 1e-128 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 387 / 2e-127 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074700 [exp] 384 / 2e-127 AT1G62930 481 / 1e-164 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G257300 [exp] 386 / 6e-127 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G046200 [exp] 385 / 1e-126 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G021200 [exp] 384 / 1e-126 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050180 [exp] 384 / 3e-126 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G045000 [exp] 384 / 3e-126 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242200 [exp] 383 / 5e-126 AT1G62930 472 / 4e-160 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	>Lus10014247 pacid=23164684 polypeptide=Lus10014247 locus=Lus10014247.g ID=Lus10014247.BGIv1.0 annot-version=v1.0 ATGATTAATGGATATTGTAAGAGTGAAAGGTTGAATGAAGTCAAACAGTTGTTCAATGATATGCTTCAGAAGGATTTAGCTCCGGACACTGTTACGTATT CTGTTCTTCTGGATGGGTTTAGCCGGGCAGGGAGAGTTATAGATGCAGAAACATTTCGTAAGGAAATGTGCAATCAGGGACACTTTCCTGATATCGTGAA ATGCGGAAGTTTGGTAAGTGGATGGTGCAGAACTGGTAATATTGATAAGGCATTAGCTCTATTTCAAGAAATGGAGAGCAGTAGGTTGAAGCCAAATATT GTCATCTATAATATTCTTATTGATAGCTTGTGGAAAGCAGGGAGGGTTAATGAAGCAAGGGTTATGTTTGCTAGGCTTTCTAAAGATGAGAGCTTACAGC TTGATGTCCCTACATACACTGTAGTAATGGATGGACAAGGTTCAGTAGATGAAGCATATGATTTGTTTAGAGCAATAGAGAGGAGTGGTTGTCTACATGA TAATTGCTCTTATAATGTAATGGTCCATGGATTTCTTCGACATAAAGATCCACTTGAAGCAGTAGAGCTAATTCGAGAGATGGTGAAAAATGGCTTCTCA GCTGATGCAACCACATTGGCTTTGGCTGTTATGAAGGATAAAAAGCATTCACCAGATGTTGTTAGTTACAATTGTTTGATTCATGGTTTATGTGCTTCGA GTCGGAAGAATGAGGCTATATTGTTGTTCGGTGAAATGTTAGAAAGGAATGTCATTCCTGATGTAGTCACCTATAACATTCTGATTGATTCTTTTTGCAA AGATGGAATGGTCCGTGAGGCTAAAGCTATTGTCAAAGTGATGATGCAAAAAGGACAGCATTCGGATATCTTCACTTACAATTCATTGCTGGATGGGTAT TGTTTGCGTAATGAATTAGACAAAGCTCGTAACTTGTTCAATTCTTTAGGTAGCATGGAATGCAAGCCGGGCGTTCATACTTATACTATGATGATTAATG GATATTGTAAGAGTGACAGGTTCAGTGAAGCCAAACAGTTGTTGAATGATATGATTAAGAAGGATTTAGCTCCGAACACTGTTACGTATACTACTCTCGT GGATGGGTTTTGCCTAGCAGGGAGGTTCAAAGATGCAGAAACGGTTTTAGAGGAAATGTGCCATCAGGGCCAGCTTCCGAATGTCGTGACATACAACAGT TTGCTAAATGGTTGGTGCAAAATAGGTCATCTGGACAAGGCATTAGCTCTATTCCAAGAAATAAAAAGTAGTCGGTTGAAGCCTGATGTTGTCATGTATA ATATTCTTATTGACAGTTTGTGGAAAGCAGGAAGGGGTAAGGAAGCAAGGGACATGTTTTCTGAGCTCTCTAAAGAAAGGGATTTACAACCTAATTCCTC CACATACAACACAGTAATTGATGGACTTTGTAGGCATGGTTTAGTAGATGAGGCATATGATTTGTTTAGAACAATGGAGAGAAGTATATTGCCGCCAAAT ATTTCCACTTATAATGTGATCATTCATGGATTTCTTCGACATAAAGATCCACTTGAAGCAGTAGAGCTAATTCAAGAGATGGTGAATAAGGGCTTCTCAG CTGATGCAACCACATTGGCTTTGCTGATAGAATTGTTGCCCAAAAACCAGCTAGATCATCCACTTTGGAGAAAGCTCTTAGGTGATTCTTATGTGGATAG AGAAGAGATTAGGTCTGAGGGTATATCAGCAGAAAAAACCTCAAAAGATTAG
AA sequence Show only first row Show all	>Lus10014247 pacid=23164684 polypeptide=Lus10014247 locus=Lus10014247.g ID=Lus10014247.BGIv1.0 annot-version=v1.0 MINGYCKSERLNEVKQLFNDMLQKDLAPDTVTYSVLLDGFSRAGRVIDAETFRKEMCNQGHFPDIVKCGSLVSGWCRTGNIDKALALFQEMESSRLKPNI VIYNILIDSLWKAGRVNEARVMFARLSKDESLQLDVPTYTVVMDGQGSVDEAYDLFRAIERSGCLHDNCSYNVMVHGFLRHKDPLEAVELIREMVKNGFS ADATTLALAVMKDKKHSPDVVSYNCLIHGLCASSRKNEAILLFGEMLERNVIPDVVTYNILIDSFCKDGMVREAKAIVKVMMQKGQHSDIFTYNSLLDGY CLRNELDKARNLFNSLGSMECKPGVHTYTMMINGYCKSDRFSEAKQLLNDMIKKDLAPNTVTYTTLVDGFCLAGRFKDAETVLEEMCHQGQLPNVVTYNS LLNGWCKIGHLDKALALFQEIKSSRLKPDVVMYNILIDSLWKAGRGKEARDMFSELSKERDLQPNSSTYNTVIDGLCRHGLVDEAYDLFRTMERSILPPN ISTYNVIIHGFLRHKDPLEAVELIQEMVNKGFSADATTLALLIELLPKNQLDHPLWRKLLGDSYVDREEIRSEGISAEKTSKD

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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...		Lus10014247 [exp]	0	1
AT5G47900			Protein of unknown function (D...		Lus10036333 [exp]	13.4	0.7702
AT2G36290			alpha/beta-Hydrolases superfam...		Lus10041666 [exp]	14.0	0.7591
AT3G25840			Protein kinase superfamily pro...		Lus10035032 [exp]	16.1	0.7672
AT5G11010			Pre-mRNA cleavage complex II p...		Lus10033870 [exp]	16.3	0.6349
AT1G07745		SSN1, ATRAD51D,...	SUPPRESOR OF SNI1, homolog of ...		Lus10025465 [exp]	21.5	0.7600
AT2G36230		HISN3, APG10	ALBINO AND PALE GREEN 10, Aldo...		Lus10021363 [exp]	24.3	0.7542
AT1G33400		TPR9	tetratricopeptide repeat 9, Te...		Lus10026202 [exp]	37.4	0.7320
AT4G03115			Mitochondrial substrate carrie...		Lus10009777 [exp]	39.4	0.7322
AT4G36280			Histidine kinase-, DNA gyrase ...		Lus10025978 [exp]	40.4	0.7231
AT2G45770		FRD4, CPFTSY	FERRIC CHELATE REDUCTASE DEFEC...		Lus10003676 [exp]	43.8	0.6783

Compare expression of checked genes

Lus10014247 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.