Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G50990 616 / 0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G48910 424 / 9e-142 LPA66 LOW PSII ACCUMULATION 66, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G21065 414 / 9e-141 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT5G66520 404 / 1e-134 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G62890 400 / 2e-133 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G37380 391 / 2e-129 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G14820 384 / 1e-125 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G08820 378 / 2e-123 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G40405 375 / 3e-123 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G47530 374 / 3e-123 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 Potri.017G001000 [exp] 413 / 8e-138 AT4G21065 793 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Potri.003G031600 [exp] 414 / 8e-137 AT3G15930 784 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.018G071800 [exp] 413 / 9e-137 AT1G08070 606 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G252400 [exp] 404 / 3e-136 AT4G21065 496 / 8e-172 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Potri.006G105700 [exp] 406 / 1e-134 AT3G08820 810 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.018G040100 [exp] 407 / 2e-134 AT1G08070 974 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G012600 [exp] 404 / 8e-134 AT2G29760 540 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G065500 [exp] 402 / 8e-134 AT5G06540 828 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.016G128900 [exp] 403 / 3e-133 AT3G08820 812 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10032531 [exp] 701 / 0 AT5G50990 625 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10000230 [exp] 562 / 0 AT5G50990 516 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10043208 [exp] 560 / 0 AT5G50990 514 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10010909 [exp] 411 / 1e-136 AT5G66520 537 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10031423 [exp] 409 / 5e-136 AT5G66520 538 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10029344 [exp] 397 / 1e-131 AT5G06540 803 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10029436 [exp] 397 / 1e-130 AT3G08820 828 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10030053 [exp] 394 / 3e-129 AT1G08070 884 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10013319 [exp] 389 / 6e-129 AT4G21065 744 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10010385 [exp] 389 / 2e-128 AT4G37380 758 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF01535 [poplar] [flax] PPR PPR repeat CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family CL0109 [poplar] [flax] CDA PF14432 [poplar] [flax] DYW_deaminase DYW family of nucleic acid deaminases
Representative CDS sequence Show only first row Show all	>Potri.012G109300.1 pacid=42783530 polypeptide=Potri.012G109300.1.p locus=Potri.012G109300 ID=Potri.012G109300.1.v4.1 annot-version=v4.1 ATGCAACTAAATGTGATAAAGAGGCTGACTACACAGCCCCATATGGGAATTATTAGGTGGAACCGTTCCTACAGTTCAGTACCAGTCTCTCCTCCTCCTC AGCAACATAATGCAGATTACCAAGAACTGTATAACCTTCTTCAATCAGGCAAAACCTCAATGGATATCAAAACTCTGAGTAAAATCCATTCAAGAATTAT TACATTTAGTTATGGTACCAGTCCGTCTCTTATGGCTTCTTTGATGTTGAAATATGTGCATTGCAATTGCCGTAGTATTGTTTATAAAGTTATTGATCAA GTTTTCTGTTGGAGTATTGATTTGGTGGAGTTGAATTTGATCATTGATAAGTTAATGAGAACGGAAAATTATAGGGTTGCCAAAATGGTTTTTAATAAAA TGCGTGCACGAGATGTGGTTACATGGAACACGATGATTGGAGGTTATGTTAGAAAAGCACGATTTGAGGAGGCATTGAGACTTTTTAGATTTATGAATAA ATCCAACGTTGAGCCAGATAAATATACATTTGCATCAGTTATAAATGGGTGTGCAAAACTTGGAGCCCTTAAACATGCTCAGTGGGTGCACGAGTTGTTG ATTGAGAAAAGAATTGAGTTGAATTTTATTTTGAGTTCAGCATTGATTGATATGTATTCCAAGTGCGGTAAAATTCAGACTGCCAAGGAGATTTTTGATG GTGTCCAACGCAACAATGTTTGTATTTGGAATGCAATGATCAGTGGTTTAGCAGTTCATGGGCTTGCTTTAGATGCAATCAAAGTCTTTACAAAGATGGA GGTGGAAAATGTTTTGCCTGATGCTATAACTTTTCTTGGAATTTTAACAGCATGTAGCCATTGTGGTTTGGTTAAAGAAGGTCGCAAATACTTTGATTTA ATGAGAAGTCGATATTCGGTTCAGCCACATATTGAGCATTACGGAGCCATGGTTGATCTCTTGGGTCGAGCTGGGCTTCTAGAAGAGGCGTTTGCCATGA TCAAATCAATGCCAATGGAACCAGATGTTGTTATATGGAGGGCACTTCTTGGTGCCTGTAGAACATACAAGAAGCCAGAACTGGGTGAAGCAGCCATGGC AAATATATCTCGTCTCAGGAGTGGAGATTATGTCTTGTTGTCAAATATCTACTGCTCTCAAAAGAGATGGGATACTGCACAGGGAGTGTGGGAAATGATG AAAAAGAAGGGAGTTCATAAGGTCCGGGGAAAGAGTTGTTTTGAGTGGGCTGGTTTTCTTCACCCATTTAAGGCAGGTGATAGATCACATCCTGAAACAG AAGCGATATACAAAATGTTGGAAGGATTAATCCAGAGAACAAAGCTGGCTGGATATGTGCCCACAACAGACTTGGTTACAATGGATGTCTCTGAAGAGGA AAAGGAGGGAAATTTGTATCATCACAGTGAAAAGTTGGCGTTGGCCTATGGGATCCTCAAGACTACCTCTGGAGCAGAAGTTAGGATTTCAAAGAACCTC CGAATCTGTTATGACTGTCACAGTTGGATAAAAATAGTTTCAAGACTTTTAAGCAGAGTTATTATTGTAAGGGATCGGATTCGATTTCACCGGTTTGAAA ATGGTTTATGTTCTTGTGGAGACTATTGGTAG
AA sequence Show only first row Show all	>Potri.012G109300.1 pacid=42783530 polypeptide=Potri.012G109300.1.p locus=Potri.012G109300 ID=Potri.012G109300.1.v4.1 annot-version=v4.1 MQLNVIKRLTTQPHMGIIRWNRSYSSVPVSPPPQQHNADYQELYNLLQSGKTSMDIKTLSKIHSRIITFSYGTSPSLMASLMLKYVHCNCRSIVYKVIDQ VFCWSIDLVELNLIIDKLMRTENYRVAKMVFNKMRARDVVTWNTMIGGYVRKARFEEALRLFRFMNKSNVEPDKYTFASVINGCAKLGALKHAQWVHELL IEKRIELNFILSSALIDMYSKCGKIQTAKEIFDGVQRNNVCIWNAMISGLAVHGLALDAIKVFTKMEVENVLPDAITFLGILTACSHCGLVKEGRKYFDL MRSRYSVQPHIEHYGAMVDLLGRAGLLEEAFAMIKSMPMEPDVVIWRALLGACRTYKKPELGEAAMANISRLRSGDYVLLSNIYCSQKRWDTAQGVWEMM KKKGVHKVRGKSCFEWAGFLHPFKAGDRSHPETEAIYKMLEGLIQRTKLAGYVPTTDLVTMDVSEEEKEGNLYHHSEKLALAYGILKTTSGAEVRISKNL RICYDCHSWIKIVSRLLSRVIIVRDRIRFHRFENGLCSCGDYW

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DESeq2's median of ratios [POPLAR]

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

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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	NWA:WT	NWB:WT	NWA:OE-ARK2	NWB:OE-ARK2	NWA:miRNA-ARK2	NWB:miRNA-ARK2	NW 0hr	WT H20	WT-NW	TUA1dEY NW	TUA1dEY+TUB15 NW	TUA1dY+TUB9 NW	Pde NW	NWA:WT GA	NWBWT GA	TW:WT	TW:WT GA	NWA:OE-ARK2 GA	NWB:OE-ARK2 GA	TW:OE-ARK2	TW:OE-ARK2 GA	NWA:miRNA-ARK2 GA	NWB:miRNA-ARK2 GA	TW:miRNA-ARK2	TW:miRNA-ARK2 GA	TW 2hr	TW 8hr	TW 24hr	TW 48hr	TW 96hr	TW 336hr	WT ACC	35S::etr1-1 H20	35S::etr1-1 ACC	LMX5::etr1-1 H20	LMX5::etr1-1 ACC	WT-TW	TUA1dEY TW	TUA1dEY+TUB15 TW	TUA1dY+TUB9 TW	Pde TW	OW:WT	OW:WT GA	OW:OE-ARK2	OW:OE-ARK2 GA	OW:miRNA-ARK2	OW:miRNA-ARK2 GA	OW 2hr	OW 8hr	OW 24hr	OW 48hr	OW 96hr	OW 336hr	Root CTR	Root LongCold	Root LongDrougt	Root LongHeat	Root LongSalt	Root ShortCold	Root ShortDrougt	Root ShortHeat	Root ShortSalt	Ptr root	Leaf CTR	Leaf LongCold	Leaf LongDrougt	Leaf LongHeat	Leaf LongSalt	Leaf ShortCold	Leaf ShortDrougt	Leaf ShortHeat	Leaf ShortSalt	Ptr leaf	Stem CTR	Stem LongCold	Stem LongDrougt	Stem LongHeat	Stem LongSalt	Stem ShortCold	Stem ShortDrougt	Stem ShortHeat	Stem ShortSalt	Ptr shoot	Ptr xylem	Ptr phloem	Ptr fiber	Ptr vessel	Ptr fiber vessel ray
AT5G50990			Tetratricopeptide repeat (TPR)...		Potri.012G109300 [exp]	0	1
AT4G34280			transducin family protein / WD...		Potri.007G051500 [exp]	2.00	0.7993
AT3G13460		ECT2	evolutionarily conserved C-ter...		Potri.001G002000 [exp]	2.23	0.8264
AT5G07950			unknown protein		Potri.018G051500 [exp]	3.46	0.7808
AT5G15280			Pentatricopeptide repeat (PPR)...		Potri.017G086000 [exp]	3.87	0.7865
AT4G34040			RING/U-box superfamily protein...		Potri.001G304900 [exp]	6.24	0.7476
AT1G13030			sphere organelles protein-rela...		Potri.008G185100 [exp]	10.95	0.7735
AT1G73180			Eukaryotic translation initiat...		Potri.013G126300 [exp]	14.49	0.7131
AT1G69290			Pentatricopeptide repeat (PPR)...		Potri.008G095800 [exp]	18.24	0.7633
AT2G28480			RNA-binding CRS1 / YhbY (CRM) ...		Potri.007G129600 [exp]	18.76	0.6599
AT5G05800			unknown protein		Potri.010G076000 [exp]	19.44	0.7450

Compare expression of checked genes

Potri.012G109300 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.