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 273 / 1e-83 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G12300 262 / 1e-80 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12620 261 / 4e-80 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12775 257 / 2e-78 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 253 / 4e-77 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62720 249 / 4e-77 AtNG1 novel gene 1, Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G63130 252 / 1e-76 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 251 / 2e-76 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 246 / 1e-74 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63400 245 / 1e-74 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 Lus10006218 [exp] 516 / 2e-180 AT5G60230 251 / 4e-80 splicing endonuclease 2 (.1.2) Lus10003427 [exp] 426 / 3e-147 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 429 / 2e-145 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 426 / 1e-144 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 416 / 2e-140 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 391 / 1e-130 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10021074 [exp] 359 / 6e-121 AT1G62930 273 / 5e-86 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003447 [exp] 342 / 6e-112 AT1G12700 202 / 1e-56 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014242 [exp] 327 / 4e-108 AT1G62930 256 / 5e-78 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.005G038400 [exp] 346 / 7e-113 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 345 / 7e-113 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G034200 [exp] 333 / 3e-108 AT1G12700 511 / 6e-174 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G032600 [exp] 333 / 7e-108 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050180 [exp] 331 / 2e-107 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G045000 [exp] 331 / 4e-107 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G150100 [exp] 326 / 7e-106 AT1G62930 442 / 8e-149 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G149800 [exp] 327 / 3e-105 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050500 [exp] 326 / 3e-105 AT1G12700 523 / 2e-178 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050400 [exp] 325 / 4e-105 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	>Lus10036865 pacid=23171200 polypeptide=Lus10036865 locus=Lus10036865.g ID=Lus10036865.BGIv1.0 annot-version=v1.0 ATGTTTGGAGATGGACCACCGGCCAATCCATCTAAGCCTCCGGCATTGCATTTCCTTGCTTCATCAATGACGAAGAGAGTCGCCTCCGGCTCTCAATTTC TGCTACCAAGGAAAGCGAGCATTGCTAAGTTTGCCTTCTCATCTCATTTACATTCCAGTCAAACTACAACCGTTGAAGGCGCTTTGGATTCTTTTAATCG TATGATCTGCATGAATCCCAGGCCTCATGTTTCCGAATTCAGTCGGTTGTTTTCGTCTCTCGTGAAAATGAATGGTTATGAAACTGCGGTCTCTGTATCT AGGCGAATGCTATCTGCTGGGTTGCTCCATGATATTTTCGGATTCAATATGTTAGTCCGTTGTTTCTGCAAACTGGATCGTATTGGTTTCGCATTCTCGG CGATGGGCAATGCGTTTAAAGTCGGTTTCCGACCTGACATTTGGACTTTCAACACCTTGATTGATGGGTTGTGTAAAGGCGGGAGAGTTACTCATGCTGT GAAGTTTTTGGAAAAGATTGTGGATTTAGGTTACGAACCGGATGTTATCAGTTACAATTCTGTAATTGACGGCCTCTGTAAGATGGGTGAAACCAGTATC AGTCTTAGATTGCTCGAGAAGATGGAAACTGCAGGCTGTTCTCCCAACGTGGTTACTTACAGTGCAATCATAGATAGGCTTTGTAAGGATGGGTTAGTGT CTGAAGCGTTCGATGTGTTTAAGAAGATGAAGGATAGAAAGATTCCACCGGACGTTGTTTGCTACAGTAGTTTGATTCATGGTTTATGTCTTTTAAGTCG AAGGAAAGAAGCAATCCTACTGTTGACTGAAATGTCGGAAATGAATATTGTTCCTAATTCAGTCATCTATTCTATCTTGGTTGATTCTTGTTGCAAAGAA GGAATGGTTCTCGAGGCCAAAGCTATAGTCAAAACGATGATACAAAGAGGATGGCGTCTGAATATCATTACATTCGGTTCATTGATAGATGGATATTGTC TGCGTAACGAATTAGACAAAGCTCGGAGGGTGAAGGAAGCGAGAGACATGTATTCTAGGCTCTCTGAAGATTCGAGTTTACAACCCAATGGCCGCATATA TGCCACCATAATCAACGGACTTTGTAGAAACGGTTTGGTAGACGAAGCGTATGATTGGTTTAGAACGATGGAGAAGAGTATTTGCTCGCTCGATGATTTC TGTTACAACGTGATGATCCGTGGGTTTCTTCAGCATAAAGATCCGCTTGAAGCAGTAGATCTAATTCAAGAGATGGTGTCTAAGGGTTTCAAAGCTGATG CATCCACATTGTCCTTAGTGGTTAACTTGTTGCGTAGAAAACAGTTGGATCATCCATTCCGCAAAAAGCTGCTAGGAGATAGTGAAGAGATAAAAGCCTT GAAGTCTAATCGAACCGGCTATTAA
AA sequence Show only first row Show all	>Lus10036865 pacid=23171200 polypeptide=Lus10036865 locus=Lus10036865.g ID=Lus10036865.BGIv1.0 annot-version=v1.0 MFGDGPPANPSKPPALHFLASSMTKRVASGSQFLLPRKASIAKFAFSSHLHSSQTTTVEGALDSFNRMICMNPRPHVSEFSRLFSSLVKMNGYETAVSVS RRMLSAGLLHDIFGFNMLVRCFCKLDRIGFAFSAMGNAFKVGFRPDIWTFNTLIDGLCKGGRVTHAVKFLEKIVDLGYEPDVISYNSVIDGLCKMGETSI SLRLLEKMETAGCSPNVVTYSAIIDRLCKDGLVSEAFDVFKKMKDRKIPPDVVCYSSLIHGLCLLSRRKEAILLLTEMSEMNIVPNSVIYSILVDSCCKE GMVLEAKAIVKTMIQRGWRLNIITFGSLIDGYCLRNELDKARRVKEARDMYSRLSEDSSLQPNGRIYATIINGLCRNGLVDEAYDWFRTMEKSICSLDDF CYNVMIRGFLQHKDPLEAVDLIQEMVSKGFKADASTLSLVVNLLRRKQLDHPFRKKLLGDSEEIKALKSNRTGY

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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...		Lus10036865 [exp]	0	1
AT5G27460			Tetratricopeptide repeat (TPR)...		Lus10020948 [exp]	1.4	0.8496
AT1G16930			F-box/RNI-like/FBD-like domain...		Lus10026190 [exp]	1.7	0.8321
AT5G25080			Sas10/Utp3/C1D family (.1)		Lus10026882 [exp]	4.9	0.8317
AT5G51140			Pseudouridine synthase family ...		Lus10022437 [exp]	7.6	0.8398
AT3G48210			unknown protein		Lus10018093 [exp]	10.6	0.8174
AT3G07170			Sterile alpha motif (SAM) doma...		Lus10025917 [exp]	12.4	0.8306
AT3G29290		EMB2076	embryo defective 2076, Pentatr...		Lus10025637 [exp]	12.7	0.8220
AT3G48210			unknown protein		Lus10042089 [exp]	13.6	0.8244
AT1G03150			Acyl-CoA N-acyltransferases (N...		Lus10042595 [exp]	17.0	0.7832
AT5G43270	SBP	SPL2	squamosa promoter binding prot...		Lus10040595 [exp]	17.9	0.7853

Compare expression of checked genes

Lus10036865 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.