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 202 / 2e-56 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G64100 186 / 3e-51 pentatricopeptide (PPR) repeat-containing protein (.1), pentatricopeptide (PPR) repeat-containing protein (.2) AT1G62930 184 / 2e-50 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12300 182 / 8e-50 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 179 / 1e-48 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 178 / 2e-48 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62680 176 / 2e-48 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12775 177 / 3e-48 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63150 176 / 1e-47 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 175 / 3e-47 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 Lus10003427 [exp] 513 / 3e-180 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 503 / 7e-173 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 471 / 2e-160 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 428 / 1e-143 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003446 [exp] 355 / 9e-121 AT1G62930 137 / 2e-37 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014247 [exp] 355 / 2e-115 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014242 [exp] 347 / 3e-114 AT1G62930 256 / 5e-78 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003429 [exp] 337 / 2e-112 AT1G62930 173 / 1e-49 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10036865 [exp] 337 / 4e-110 AT1G12700 273 / 1e-83 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.006G257300 [exp] 246 / 2e-73 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 244 / 6e-73 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 242 / 5e-72 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271400 [exp] 241 / 1e-71 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271200 [exp] 239 / 3e-71 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G038400 [exp] 239 / 5e-71 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 239 / 2e-70 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.004G074500 [exp] 236 / 4e-70 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G149800 [exp] 236 / 8e-70 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242200 [exp] 234 / 2e-69 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	>Lus10003447 pacid=23164882 polypeptide=Lus10003447 locus=Lus10003447.g ID=Lus10003447.BGIv1.0 annot-version=v1.0 ATGGCGAAGTTTCCCTATTCTTCTGCTGCTTCTCCCACGGCGGCTCTCTCCTCTCATCTCCGTTCCAATTGGACTACTGCCATTCGTACCTCCGATTCTC CACCTTTCACTACCATCAAAGGAGCTTTGGATTCTTTTAATAGCATGCTCTGCTTGAATCCCAGACCTCACGCTGCAAAATTCGGTCAGGTATTTGCTTT TCTTGTGAAGATGAATGCTTATGAAGCTGCTGTTTCTGTATCTAGGCGAATGGATTCCGCTGGGTTGGTATTTGATCTTTTCAAATTTAATGCATTGATT CGTTGCTTCTGCAAATTGGGTCGTGTTGGTTTTGCATTCTCAGTATTGGGAAAAATATTTAAACTTGGTCATCAACCTGATGTGGTCACTTTTAATATCT TGATTGATGCATTGTGCAAAGATGGAAAAGTTGCTCATGCTGCAAAGTTGATGGATAAGATTGTTTCTTTAGGATTTCAACCAGATGTTATCACTTATAG TTCTATCATCAATGGCCTGTGTAAAATGGGTGAAACTAGTGCTGCTCAGAGATTGCTGGAGAAAATGGAAGATGGAGGTTGTCAACCAGATGTGGTTACT TACAGTACAGTTATAGATAGCTTATGTAAGGATGGGTTGATATCTGAAGCCTTAGATGAGTTTTACAAGATGAAGGATAAAAAGCGTTCACCAAATGTTG TTAGTTACAGTTGTTTGATTCATGGTTTATGTGCTTCAAGTCGGAAGAATGAAGCTATATTGTTGTTTGGCGATATGTTAGAAATGAATGTCATTCCTAA TGTAGTCACCTATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTAAATGGTTGGTGCAAAATAGGTCATCTGGACAAG GCATTAGCTCTATTCCAAGAAATAAAAAGTAGTCGGTTGAAGCCTAATGTTGTCATGTATACTATTCTTATTGACAGTTTGTGGAAAGCAGGAAGGGGTA AGGAAGCAAGGGACATGTTTTCTGAGCTCTCTAAAGAAAGGGATTTACAACCTGATTCCTACACATACAACACAGTAATTGATGGACTTTGTAGGCATGG TTTAGTAGATGAGGCATATGATTTGTTTAGAACAATGGAGAGAAGTATATTGAAGCCAGATAATTGCACTTATAATGTGATCATCCATGGATTTCTTCGA CATAAAGATCCACTTGAAGCAGTAGAGCTAATTCAAGAGATGGTGAATAAGGGCTTCTCAGCTGATGCAGCCACATTAGCCTTGCTGATTGAATTGTTGC CTAAAAACCAGCTAGATCATCCACTTTGGAGAAAGTTCTTAGGTGATTCTTATGTGGATAGAGAAGTGATTAGGTCTGAGGGTATATCAGCAGAAAAAAC CTCAAAAGATTAG
AA sequence Show only first row Show all	>Lus10003447 pacid=23164882 polypeptide=Lus10003447 locus=Lus10003447.g ID=Lus10003447.BGIv1.0 annot-version=v1.0 MAKFPYSSAASPTAALSSHLRSNWTTAIRTSDSPPFTTIKGALDSFNSMLCLNPRPHAAKFGQVFAFLVKMNAYEAAVSVSRRMDSAGLVFDLFKFNALI RCFCKLGRVGFAFSVLGKIFKLGHQPDVVTFNILIDALCKDGKVAHAAKLMDKIVSLGFQPDVITYSSIINGLCKMGETSAAQRLLEKMEDGGCQPDVVT YSTVIDSLCKDGLISEALDEFYKMKDKKRSPNVVSYSCLIHGLCASSRKNEAILLFGDMLEMNVIPNVVTYXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLNGWCKIGHLDK ALALFQEIKSSRLKPNVVMYTILIDSLWKAGRGKEARDMFSELSKERDLQPDSYTYNTVIDGLCRHGLVDEAYDLFRTMERSILKPDNCTYNVIIHGFLR HKDPLEAVELIQEMVNKGFSADAATLALLIELLPKNQLDHPLWRKFLGDSYVDREVIRSEGISAEKTSKD

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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...		Lus10003447 [exp]	0	1
AT5G15270			RNA-binding KH domain-containi...		Lus10005232 [exp]	10.2	0.8169
AT1G04390			BTB/POZ domain-containing prot...		Lus10027380 [exp]	10.5	0.8132
AT1G80960			F-box and Leucine Rich Repeat ...		Lus10028602 [exp]	15.3	0.7916
AT3G13225			WW domain-containing protein (...		Lus10005845 [exp]	26.5	0.8042
AT2G13680		GLS2, ATGSL02, ...	ARABIDOPSIS THALIANA GLUCAN SY...		Lus10002097 [exp]	29.5	0.8066
AT5G58410			HEAT/U-box domain-containing p...		Lus10026420 [exp]	33.0	0.8061
AT3G01460		MBD9, ATMBD9	methyl-CPG-binding domain 9 (....		Lus10030625 [exp]	36.7	0.8004
AT1G79490		EMB2217	embryo defective 2217, Pentatr...		Lus10037517 [exp]	38.7	0.7807
AT5G06600		AtUBP12, UBP12	ubiquitin-specific protease 12...		Lus10043456 [exp]	41.4	0.7930
AT2G47330			P-loop containing nucleoside t...		Lus10037527 [exp]	43.5	0.7936

Compare expression of checked genes

Lus10003447 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.