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 256 / 4e-78 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT3G22470 253 / 5e-78 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 252 / 1e-77 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 251 / 5e-77 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 248 / 7e-76 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63150 244 / 1e-74 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62670 241 / 3e-73 RPF2 rna processing factor 2 (.1) AT1G62910 239 / 1e-72 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12300 237 / 1e-71 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12620 236 / 2e-71 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 Lus10014247 [exp] 664 / 0 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003433 [exp] 657 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 647 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 643 / 0 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 468 / 5e-162 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10009201 [exp] 439 / 3e-154 AT1G12700 274 / 3e-86 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 444 / 2e-152 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003429 [exp] 413 / 1e-144 AT1G62930 173 / 1e-49 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003446 [exp] 398 / 4e-140 AT1G62930 137 / 2e-37 RNA processing factor 3, 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.005G046200 [exp] 317 / 9e-103 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 317 / 1e-102 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 314 / 1e-101 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G038400 [exp] 311 / 2e-100 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.014G117600 [exp] 305 / 1e-99 AT1G12700 330 / 1e-105 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 308 / 3e-99 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G047400 [exp] 305 / 4e-99 AT1G63080 341 / 1e-110 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G050180 [exp] 306 / 2e-98 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G045000 [exp] 306 / 2e-98 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074700 [exp] 302 / 5e-98 AT1G62930 481 / 1e-164 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	>Lus10014242 pacid=23164730 polypeptide=Lus10014242 locus=Lus10014242.g ID=Lus10014242.BGIv1.0 annot-version=v1.0 ATGGCGAAGTTTCCCTATTCTTCTGCTGCTTCTCCCACGGCGGCTCTCTCCTTTCATCTCCGTTCCAATTGGACTACTGCCGTTCGTACCTCCGATTCTC CACCTTTCACTACCATCAAAGGAGCTTTGGATTCTTTTAATAGCATGCTCTGCTTGAATCCCAGACCTCCCGCTGCAAAATTCGGTCAGATATTTTCATT TCTTGTGAAGATGAATGCTTATGAAGCTGCTGTTTCTGTATCTAGGCGAATGGATTCCGCTGGGAATGTCATTCCTGATGTAGTCACCTATACCATTCTG ATTGATTCTTTTTGCAAAGATGGAATGGTCCGTGAGGCTAAAGCTATTGTCAAAGTGATGATGCAAAAAGGACAGCATCCGAATATCGTCACTTACAATT CATTGCTGGATGGGTATTGTTTGCGTAATGAATTAGACAAAGCTCGTAACTTGTTCAATTCTTTAGGTAGCATGGAATGCGAGCCGGGCGTTCATACTTA TACTATGATGATTAATGGATATTGTAAGAGTGACAGGTTCAGTGAAGCCAAACAGTTGTTGAATGATATGATTAAGAAGGATTTAGCTCCGAACACTGTT ACGTATACTACTCTCGTGGATGGGTTTTGCAAAGCAGGGAGGTTCAAAGGTGCAGAAACGGTTTTAAAGGAAATGTGCCATCATGGACAGCTTCCGGATG TCGTGACATACAACAGTTTGCTAAATGGTTGGTGCAAAATAGGTCATCTGGACAAGGCATTAGCTCTATTCCAAGAAATAAAAAGTAGTCGGTTGAAGCC TGATGTTGTCATGTATAATATTCTTATTGACAGTTTGTGGAAAGCAGGAAGGGGTAAGGAAGCAAGGGACATGTTTTCTGAGCTCTCTAAAGAAAGGGAT TCACAACCTAATTCCTACACATACACCACAGTAATTGATGGACTTTGTAGGCATGGTTTAGTAGATGAGGCATATGATTTGTTTAGAACAATGGAGAGAA GCATATTCCCGCCAAATATTAGCATTTATAATGTGATCATCCATGGATTTCTTCGACATAAAGATCCACTTGAAGCAGTAGAGTTAATTCAAGAGATGGT GTATAAGGGCTTCTCAGCTGATGCAACCACATTGGCCTTGCTGATAGAATTGTTGCCCAAAAACCAGCTAGATCATCCACTTTGGAGAAAGCTCCTAGGT GATTCTTATGTGGATAGAGAAGAGATTAGGTCTGAGGGTATATCAGCAAAAAAAACCTCAAAAGATTAG
AA sequence Show only first row Show all	>Lus10014242 pacid=23164730 polypeptide=Lus10014242 locus=Lus10014242.g ID=Lus10014242.BGIv1.0 annot-version=v1.0 MAKFPYSSAASPTAALSFHLRSNWTTAVRTSDSPPFTTIKGALDSFNSMLCLNPRPPAAKFGQIFSFLVKMNAYEAAVSVSRRMDSAGNVIPDVVTYTIL IDSFCKDGMVREAKAIVKVMMQKGQHPNIVTYNSLLDGYCLRNELDKARNLFNSLGSMECEPGVHTYTMMINGYCKSDRFSEAKQLLNDMIKKDLAPNTV TYTTLVDGFCKAGRFKGAETVLKEMCHHGQLPDVVTYNSLLNGWCKIGHLDKALALFQEIKSSRLKPDVVMYNILIDSLWKAGRGKEARDMFSELSKERD SQPNSYTYTTVIDGLCRHGLVDEAYDLFRTMERSIFPPNISIYNVIIHGFLRHKDPLEAVELIQEMVYKGFSADATTLALLIELLPKNQLDHPLWRKLLG DSYVDREEIRSEGISAKKTSKD

---

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
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Lus10014242 [exp]	0	1
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014244 [exp]	7.5	0.7292
					Lus10038468 [exp]	21.2	0.6691
					Lus10038470 [exp]	25.4	0.6677
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10014245 [exp]	30.7	0.7034
AT2G01640			unknown protein		Lus10027869 [exp]	34.9	0.6638
AT2G36230		HISN3, APG10	ALBINO AND PALE GREEN 10, Aldo...		Lus10017042 [exp]	47.2	0.6934
AT1G20770			unknown protein		Lus10030736 [exp]	67.2	0.6764
AT4G26190			Haloacid dehalogenase-like hyd...		Lus10021147 [exp]	68.8	0.6798
AT1G68490			unknown protein		Lus10041444 [exp]	105.1	0.5915
AT5G19485			transferases;nucleotidyltransf...		Lus10036081 [exp]	105.5	0.6413

Compare expression of checked genes

Lus10014242 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.