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 397 / 8e-130 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G62930 392 / 3e-129 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 392 / 4e-129 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63150 387 / 2e-127 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 386 / 9e-127 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 382 / 5e-125 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 375 / 1e-122 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G63330 373 / 1e-122 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 372 / 2e-121 RPF2 rna processing factor 2 (.1) AT1G12775 371 / 6e-121 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] 1094 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 1022 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 749 / 0 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10008593 [exp] 716 / 0 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003427 [exp] 681 / 0 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 649 / 0 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014242 [exp] 642 / 0 AT1G62930 256 / 5e-78 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10009201 [exp] 563 / 0 AT1G12700 274 / 3e-86 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10029737 [exp] 548 / 0 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.005G045000 [exp] 504 / 5e-173 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G038400 [exp] 503 / 2e-172 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 501 / 8e-172 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G021200 [exp] 484 / 9e-166 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050180 [exp] 481 / 3e-164 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G032600 [exp] 481 / 4e-164 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 479 / 2e-163 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G050300 [exp] 479 / 3e-163 AT1G12700 466 / 5e-156 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271400 [exp] 478 / 7e-163 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050400 [exp] 478 / 1e-162 AT1G12700 504 / 3e-171 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.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	>Lus10014244 pacid=23164675 polypeptide=Lus10014244 locus=Lus10014244.g ID=Lus10014244.BGIv1.0 annot-version=v1.0 ATGGCGAAGTTTCCCTATTCTTCTGCTGCTTCTCCCACGGCGGCTCTCTCCTCTCATCTCCGTTCCAATTGGACTACTGCCATTCGTACCTCCGATTCTC CACCTTTCACTACCATCAAAGGAGCTTTGGATTCTTTTAATAGCATTCTCTGCTTGAATCCCAGACCTCCCGCTGCAAAATTCGGTCAGGTATTTGCTTT TCTTGTGAAGATGAATGCTTATGAAGCTGCTGTTTCTGTATCTAGGCGAATGGATTCCGCTGGGTTTGTATTTGATATTTTCAAATTTAATGCATTGATT CGTTGCTTCTGCAAATTGGGTCGTGTTGGTTTTGCATTCTCAGTATTGGGAAAAATATTTAAACTTGGTCATCAACCTGATGTGGTCACTTTTAATATCT TGATTGATGCATTGTGCAAAGATGGAAAAGTTGCTCATGCTGCAAATTTGATGGATAAGATTGTTTCTTTAGGATTTCAACCAGATGTTATCACTTATAG TTCTATCATCAATGGCCTGTGTAAAATGGGTGAAACTAGTGCTGCTCAGAGATTGCTGGAGAAAATGGAAGATGTTTACAATACAATTATAGATAGCCTA TGTAAGTATGGGTTGGTATCTAAAGCCTTAGATGAGTTTTACAAGATGAAGGATAGAAAATGTTCACCAGATGTTGTTAGTTACAGTTGTTTGGTTCGTT GTTTTTGTGCTTCAAGTCGGAAGAATGAAGCTATATTGTTGTTTGGCGATATGTTAGAAATGAATGTCATTCCTGATGTAGTCAGCTATACCATTCTGAT TGATTCTTTTTGCAAAGATGGAATGGTCCGTGAGGCTAAAGCTATTGTCAAAGTGATGATGCAAAAAGGACAGCATTCGGATATCTTCACTTACAATTCA TTGCTGGATGGGTATTGTATGCTTAATGAATTAGACAAAGCTCGTAACTTGTTCAATTCTTTAGGTAGCATGGAATGCGAGCCGGGCGTTCATACTTATA CTATGATGATTAATGGATATTGTAAGAGTGGCAGGTTCAGTGAAGCCAAACAGTTGTTGAATGATATGATTAAGAAGGATTTAGCTCCGAACACTGTTAC ATATAGTACTCTCGTGGATGGGTTTTGCCGAACAGGGAGGTTCAAAGATGCAGAAACGGTTTTAAAGGAAATGTGCCATCAGGGACAGACTCCGAATGTC GTGACATACAGCAGTTTCCTAAATGGTTGGTGCAAAATAGGTCATCTGGACAAGGCATTAGCTCTATTACAAGAAATAAAAAGTAGCCGGTTGAAGCCTA ATGTTGTCATGTATACTATTCTTATTGACAGTTTGTGGAAAGCAGGAAGGGGTAAGGAAGCAAGGGACATGTTTTCTGAGCTCTCTAAAGAAAGGGATTT ACAACCTGATTCCTACACATACAACACAGTAATTGATGGACTTTGTAGGCATGGTTTAGTAGATGAGGCATATGATTTGTTTAGAACAATGGAGAGAAGC ATATTCCCGCCAGATATTTGCACTTATAATGTGATCATCCATGGATTTCTTCGACATAAAGATCCACTTGAAGCAGTAGAGCTAATTCAAGAGATGGTGA ATAAGGGCTTCTTAGCTGATGCAACCACATTGGCCTTGCTGAGAGAATTGTTGCCCAAAAACCAGCTAGATCATCCACTTTGGAGAAAGCTCTTAGGTGA TTCTTATGTGGATAGAGAAGAGATTAGGTCTGAGGGTATATCAGCAGAAAAAACCTCAAAAGATTAG
AA sequence Show only first row Show all	>Lus10014244 pacid=23164675 polypeptide=Lus10014244 locus=Lus10014244.g ID=Lus10014244.BGIv1.0 annot-version=v1.0 MAKFPYSSAASPTAALSSHLRSNWTTAIRTSDSPPFTTIKGALDSFNSILCLNPRPPAAKFGQVFAFLVKMNAYEAAVSVSRRMDSAGFVFDIFKFNALI RCFCKLGRVGFAFSVLGKIFKLGHQPDVVTFNILIDALCKDGKVAHAANLMDKIVSLGFQPDVITYSSIINGLCKMGETSAAQRLLEKMEDVYNTIIDSL CKYGLVSKALDEFYKMKDRKCSPDVVSYSCLVRCFCASSRKNEAILLFGDMLEMNVIPDVVSYTILIDSFCKDGMVREAKAIVKVMMQKGQHSDIFTYNS LLDGYCMLNELDKARNLFNSLGSMECEPGVHTYTMMINGYCKSGRFSEAKQLLNDMIKKDLAPNTVTYSTLVDGFCRTGRFKDAETVLKEMCHQGQTPNV VTYSSFLNGWCKIGHLDKALALLQEIKSSRLKPNVVMYTILIDSLWKAGRGKEARDMFSELSKERDLQPDSYTYNTVIDGLCRHGLVDEAYDLFRTMERS IFPPDICTYNVIIHGFLRHKDPLEAVELIQEMVNKGFLADATTLALLRELLPKNQLDHPLWRKLLGDSYVDREEIRSEGISAEKTSKD

---

DESeq2's median of ratios [FLAX]

Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

---

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...		Lus10014244 [exp]	0	1
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Lus10003429 [exp]	1.0	0.8499
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014245 [exp]	1.4	0.8252
AT5G46190			RNA-binding KH domain-containi...		Lus10038509 [exp]	3.5	0.8115
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Lus10014242 [exp]	7.5	0.7292
AT5G15010			Tetratricopeptide repeat (TPR)...		Lus10021991 [exp]	18.4	0.7583
AT5G61930		APO3	ACCUMULATION OF PHOTOSYSTEM ON...		Lus10005547 [exp]	18.6	0.7328
AT2G31290			Ubiquitin carboxyl-terminal hy...		Lus10003059 [exp]	20.2	0.6809
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10003433 [exp]	20.8	0.7747
AT4G38120			ARM repeat superfamily protein...		Lus10033267 [exp]	23.5	0.7328
AT4G02750			Tetratricopeptide repeat (TPR)...		Lus10017298 [exp]	23.5	0.6568

Compare expression of checked genes

Lus10014244 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.