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 AT1G12700 291 / 1e-91 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G12300 286 / 8e-91 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12775 281 / 7e-89 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 277 / 2e-87 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 273 / 6e-86 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 273 / 6e-86 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12620 273 / 7e-86 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63400 271 / 7e-86 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63150 272 / 2e-85 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 271 / 2e-85 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 Lus10014245 [exp] 715 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 678 / 0 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 650 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003447 [exp] 511 / 2e-179 AT1G12700 202 / 1e-56 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 471 / 1e-163 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10036865 [exp] 421 / 3e-145 AT1G12700 273 / 1e-83 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10020134 [exp] 398 / 2e-138 AT1G12700 254 / 3e-78 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10009201 [exp] 395 / 1e-137 AT1G12700 274 / 3e-86 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 392 / 1e-132 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.005G038400 [exp] 367 / 2e-122 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 363 / 7e-121 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G046200 [exp] 362 / 1e-120 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G149800 [exp] 361 / 6e-120 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271400 [exp] 356 / 2e-118 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G021200 [exp] 355 / 3e-118 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050500 [exp] 355 / 7e-118 AT1G12700 523 / 2e-178 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G034200 [exp] 354 / 2e-117 AT1G12700 511 / 6e-174 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.017G032100 [exp] 352 / 2e-117 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242200 [exp] 351 / 1e-116 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	>Lus10003427 pacid=23164890 polypeptide=Lus10003427 locus=Lus10003427.g ID=Lus10003427.BGIv1.0 annot-version=v1.0 ATGGCGAAGTTTCCCTATTCTTCTGCTGCTTCTCCCACGGCGGCTCTCTCCTCTCATCTCCGTTCCAATTGGACTACTGCCATTCGTACCTCCGATTCTC CCCCTTTCACTACCATCAAAGGAGCTTTGGATTCTTTTAATAGCATGCTCTGCTTGAATCCCAGACCTCCCGCTGCAAAATTTTGTCAGATATTTGCATT TCTTGTGAAGATGAATGCTTATGAAGCTGCTGTTTCTGTATCTAGGCGAATGGATTCCGCTGGGTTGGTACTTGATCTTTTCAAATTTAATGCATTGATT CGTTGCTTCTGCAAATTGGGTCGTGTTGGTTTTGCATTCTCAGTATTGGGAAAAATATTTAAACTTGGTCATCAACCTGATGTGGTCACTTTTAATATCT TGATTGATGCATTGTGCAAAGATGGAAAAGTTGCTCATGCTGCAAATTTGATGGATAAGATTGTTTCTTTAGGATTTCAACCAGATGTTATCACTTATAA TTCTATCATCAATGGCCTGTGTAAGATGGGTGAAACTAGTGCTGCTCAGAGATTGCTGGAGAAAATGGAAGATGGAGGTTGTCAACCAGATGTGGTAACT TACAGTACAGTTATAAATAGCCTATGTAAGGATGGGTTGATATCTGAAGCCTTAGATGAGTTTTACAAGATGAAGCATAAAAAGTGTTCACCAAATGTTG TTAGTTACAGTTGTTTGATTCATGGTTTATGTGCTTCAAGTCGGAAGAATGAAGCTATATTGTTGTTCGGTGAAATGTTAGAAATGAATGTCATTCCTAA TGTAGTCACCTATACCATTCTGATTGATTCTTTTTGCAAAGATGGAATGGTCCGTGAGGCTAAAGCTATTGTCAAAGTGATGATGCAAAAAGGACAGCAT CCGGATATCTTCACGTACAGTTCATTGCTGGATGGGTATTGTTTGCGTAATGAATTAGACAAAGCTCGTAACTTGTTCAATTCTTTAGGTAGCATGGAAT GCGAGCCTACCGTTCATACTTATAATATGATGATTAATGGATATTGTAAGAGTGGCAGGTTCAGTGAAGCCAAACAGTTGTTGAATGATATGATTAAGAA GGATTTAGTTCCAGACACGGTTACATATACTACTCTCGGGGGTGGGTTTTGCCCAGCATAA
AA sequence Show only first row Show all	>Lus10003427 pacid=23164890 polypeptide=Lus10003427 locus=Lus10003427.g ID=Lus10003427.BGIv1.0 annot-version=v1.0 MAKFPYSSAASPTAALSSHLRSNWTTAIRTSDSPPFTTIKGALDSFNSMLCLNPRPPAAKFCQIFAFLVKMNAYEAAVSVSRRMDSAGLVLDLFKFNALI RCFCKLGRVGFAFSVLGKIFKLGHQPDVVTFNILIDALCKDGKVAHAANLMDKIVSLGFQPDVITYNSIINGLCKMGETSAAQRLLEKMEDGGCQPDVVT YSTVINSLCKDGLISEALDEFYKMKHKKCSPNVVSYSCLIHGLCASSRKNEAILLFGEMLEMNVIPNVVTYTILIDSFCKDGMVREAKAIVKVMMQKGQH PDIFTYSSLLDGYCLRNELDKARNLFNSLGSMECEPTVHTYNMMINGYCKSGRFSEAKQLLNDMIKKDLVPDTVTYTTLGGGFCPA

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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
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10003427 [exp]	0	1
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10003433 [exp]	1.0	0.9050
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Lus10003429 [exp]	2.8	0.8142
AT5G11030		ALF4	aberrant lateral root formatio...		Lus10006197 [exp]	26.1	0.7879
AT4G29940	HD	PRHA	pathogenesis related homeodoma...		Lus10020011 [exp]	29.0	0.7965
AT1G62680			Pentatricopeptide repeat (PPR)...		Lus10025942 [exp]	36.8	0.7687
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014244 [exp]	41.8	0.7360
AT4G00020		BRCA2(IV), BRCA...	MATERNAL EFFECT EMBRYO ARREST ...		Lus10017786 [exp]	60.6	0.7430
					Lus10004492 [exp]	71.2	0.7178
					Lus10022719 [exp]	84.7	0.7129
AT5G20320		DCL4, ATDCL4	dicer-like 4 (.1.2)		Lus10040013 [exp]	113.5	0.7214

Compare expression of checked genes

Lus10003427 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.