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 398 / 3e-130 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G63150 389 / 6e-128 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 387 / 3e-127 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 385 / 2e-126 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 381 / 8e-125 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62670 379 / 7e-124 RPF2 rna processing factor 2 (.1) AT1G12300 377 / 3e-123 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 373 / 7e-122 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12620 367 / 2e-119 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 361 / 4e-117 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] 734 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 714 / 0 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 677 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 644 / 0 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 574 / 0 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10029737 [exp] 561 / 0 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10042768 [exp] 553 / 0 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 530 / 0 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003427 [exp] 471 / 4e-163 AT1G12700 291 / 8e-92 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.013G149800 [exp] 513 / 3e-176 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G045000 [exp] 512 / 4e-176 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 509 / 7e-175 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 509 / 1e-174 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G038400 [exp] 506 / 9e-174 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G021200 [exp] 500 / 1e-171 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.018G038300 [exp] 496 / 3e-170 AT1G12700 490 / 8e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242200 [exp] 495 / 1e-169 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242500 [exp] 494 / 3e-169 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 494 / 5e-169 AT1G12700 486 / 3e-164 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	>Lus10008593 pacid=23180089 polypeptide=Lus10008593 locus=Lus10008593.g ID=Lus10008593.BGIv1.0 annot-version=v1.0 ATGGATAATTTTCCATTTTCCTCATCTTCTTCAGCATTGTCAACAACGGCCCTTTCCTCTCATTTCCGTTCCAACACTGCTACTCGTCCTACCACTAGTT CTACTCCTTGCACCACTGTTGAAGGCGCCTTGGATTCATTTAATCGGATGCTATGCATGAATCCCAGGCCTCATATAGCCGAGTTCGGTCAGTTATTCTT ATTTCTTGTGAAAATGAATGCTTATGGAGCTGCAGTTTCGGTTTCCAGACAAATGCAATTGGCTGGACTGCCACATAACATTTTCAGATTCAATATGTTG ATGAGTTGCTTCATCAAATTGGCTCGTGTTGATTTTGCATTTTCATTACTAGGCAGAGTTTTTAAACTTGGTCTTGAACCTAGTTTTGTTACTTTCAACA CCTTAATTGATGGATTGTGCAAAGATAACAAAGTTGATCACGCAGTGAAGTTCCTTGATAAGATTATAGAGTTAGGAGTTCAACCAGATATTGCCGCTTA TAATACGATTATAGATGGGCTATGTAAGTTGGGTAAAACCAGTGTTGGTCTTAAACTGCTTGAGAATTTGGAAGATGGAGGAGGTTGTCCTCCGAATGTT TTTACTTACAATACGATCATGGATAGCCTTTGTAAGGATGGGCTGGTCTCTGAAGCCATAGATGTTTTCCGCAAGATGAAGGATAGAAAGTGTTCGCCGG ATGTTATAAGTTACAATTGCTTGGCTCATGGTTTATGTCTTTTGAGTCGGAGGAAAGAAGCAATGGCATTGTTGAATGAAATGTTAGAAATGAATGTCGT TCCTGACGTAGTCACTTATAACACTCTGATCAACTACTTTTGCAAAGACGGAATGGTTCTAGTGGCCAAAGCTATAGTTAAAATGATTTTTCAGAAAGGA CTGCAACCGGATATCGTCACCTACAATTCATTGCTGGATGGGTATTGTTTGCGTAGCGAATTAGACAAAGCTCGTAAATTATTTGACTTTTTAGTCTGCA AAGGATGCGATGCGAGCTTCCACGTTTCTACCTATAATATCATGATCAACGGATATTGTAAAAGTGAAAGGTTGGGTGAAGCCAAACAGTTATTGAATGA TATGCTTAAAAGGGACATATCTCCAAACACTATTACGTATAGTGCTCTTGTGGCTGGGTTTTGCCAAGTGGGGAGGCTTAAGGATGCGCAAGAACTCCTC AATAAAATGTATGATCAAGGATTGATCCCGGATGTCGTGACATGCAGTAGTTTATTAAGTGGCTGGTGCAAAATAGGTAGAGTAGATGCGGCATTAGCTC TACTTAAAGACATGGAACGTAGTTGGTTGAAGCCTAATGTTTTCAGCTATAACATTCTTATTGATAGCTTGTTTAGAGCAGGGAGGGTGGGGGAAGCACA AGACATGTTTTCTAGGCTCTGTAAAGATGAGAGTTTACAGCCTGATTTGTGCATGTATACCACGGTAATGGCTGGACTTTGTAGACATGGTTTGGTAGAT GAAGCGTATGATTTGTTTAGAACAATGGAGAGAAGTATTTGGTCGCCGGATAGTAGCTCTTATAATGTTATTATCCATGGGTTTCTTCGACATAAAGATC CAATCAAAACAGTAGACCTAATTCAAGAGATGGTGTCTAAGGGTTTCTCAGCTGATGCAACCACATTGTCGTTGCTGGTTGAATTATTGCCCAAAAACGA GTTGGGTCATCCACTTGTCAGGAAGCTGCTAGGTGACTCTGATGATGTGGGTGGTGAAAGAGATAAGGGCTAA
AA sequence Show only first row Show all	>Lus10008593 pacid=23180089 polypeptide=Lus10008593 locus=Lus10008593.g ID=Lus10008593.BGIv1.0 annot-version=v1.0 MDNFPFSSSSSALSTTALSSHFRSNTATRPTTSSTPCTTVEGALDSFNRMLCMNPRPHIAEFGQLFLFLVKMNAYGAAVSVSRQMQLAGLPHNIFRFNML MSCFIKLARVDFAFSLLGRVFKLGLEPSFVTFNTLIDGLCKDNKVDHAVKFLDKIIELGVQPDIAAYNTIIDGLCKLGKTSVGLKLLENLEDGGGCPPNV FTYNTIMDSLCKDGLVSEAIDVFRKMKDRKCSPDVISYNCLAHGLCLLSRRKEAMALLNEMLEMNVVPDVVTYNTLINYFCKDGMVLVAKAIVKMIFQKG LQPDIVTYNSLLDGYCLRSELDKARKLFDFLVCKGCDASFHVSTYNIMINGYCKSERLGEAKQLLNDMLKRDISPNTITYSALVAGFCQVGRLKDAQELL NKMYDQGLIPDVVTCSSLLSGWCKIGRVDAALALLKDMERSWLKPNVFSYNILIDSLFRAGRVGEAQDMFSRLCKDESLQPDLCMYTTVMAGLCRHGLVD EAYDLFRTMERSIWSPDSSSYNVIIHGFLRHKDPIKTVDLIQEMVSKGFSADATTLSLLVELLPKNELGHPLVRKLLGDSDDVGGERDKG

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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...		Lus10008593 [exp]	0	1
					Lus10005904 [exp]	5.2	0.8299
AT2G25710		HCS1	holocarboxylase synthase 1 (.1...		Lus10025604 [exp]	10.7	0.8133
AT3G61415		ASK21	SKP1-like 21 (.1.2)		Lus10014770 [exp]	11.2	0.7751
AT5G36260			Eukaryotic aspartyl protease f...		Lus10027001 [exp]	11.8	0.7896
AT5G19370			rhodanese-like domain-containi...		Lus10026105 [exp]	15.9	0.7833
AT3G07610		IBM1	increase in bonsai methylation...		Lus10002051 [exp]	16.5	0.7805
AT3G02680		ATNBS1, NBS1	nijmegen breakage syndrome 1 (...		Lus10020784 [exp]	18.8	0.8045
AT4G04190			unknown protein		Lus10020577 [exp]	18.8	0.7883
AT3G54980			Pentatricopeptide repeat (PPR)...		Lus10019524 [exp]	20.9	0.8099
AT2G26590		RPN13	regulatory particle non-ATPase...		Lus10040571 [exp]	21.6	0.7962

Compare expression of checked genes

Lus10008593 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.