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 AT4G21350 379 / 7e-131 PUB8, B80 plant U-box 8 (.1) AT3G46510 154 / 1e-41 ATPUB13 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) AT1G23030 128 / 2e-32 PUB11 ARM repeat superfamily protein (.1) AT5G42340 128 / 2e-32 PUB15 Plant U-Box 15 (.1) AT3G54850 128 / 2e-32 ATPUB14 plant U-box 14 (.1) AT1G71020 124 / 2e-31 ARM repeat superfamily protein (.1.2) AT2G28830 97 / 1e-21 AtPUB12 PLANT U-BOX 12 (.1) AT1G29340 87 / 2e-18 ATPUB17, PUB17 ARABIDOPSIS THALIANA PLANT U-BOX 17, plant U-box 17 (.1) AT1G10560 87 / 2e-18 ATPUB18 ARABIDOPSIS THALIANA PLANT U-BOX 18, plant U-box 18 (.1) AT5G01830 87 / 3e-18 ARM repeat 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.011G033300 [exp] 578 / 0 AT4G21350 405 / 7e-141 plant U-box 8 (.1) Potri.009G029600 [exp] 168 / 1e-46 AT3G46510 935 / 0.0 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Potri.001G238500 [exp] 163 / 8e-45 AT3G46510 912 / 0.0 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Potri.008G035700 [exp] 145 / 1e-38 AT3G54850 821 / 0.0 plant U-box 14 (.1) Potri.002G009900 [exp] 145 / 3e-38 AT5G42340 763 / 0.0 Plant U-Box 15 (.1) Potri.009G165900 [exp] 140 / 2e-36 AT5G42340 671 / 0.0 Plant U-Box 15 (.1) Potri.008G128600 [exp] 135 / 7e-35 AT1G23030 697 / 0.0 ARM repeat superfamily protein (.1) Potri.010G226500 [exp] 134 / 1e-34 AT3G54850 806 / 0.0 plant U-box 14 (.1) Potri.004G205000 [exp] 134 / 2e-34 AT5G42340 654 / 0.0 Plant U-Box 15 (.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 Lus10020077 [exp] 401 / 2e-139 AT4G21350 413 / 6e-144 plant U-box 8 (.1) Lus10006747 [exp] 396 / 2e-137 AT4G21350 405 / 6e-141 plant U-box 8 (.1) Lus10007511 [exp] 160 / 2e-43 AT3G46510 397 / 2e-129 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Lus10017444 [exp] 157 / 1e-42 AT3G46510 381 / 2e-123 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Lus10016565 [exp] 155 / 1e-41 AT3G46510 884 / 0.0 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Lus10040834 [exp] 153 / 6e-41 AT3G46510 879 / 0.0 ARABIDOPSIS THALIANA PLANT U-BOX 13, plant U-box 13 (.1) Lus10037970 [exp] 138 / 8e-36 AT3G54850 803 / 0.0 plant U-box 14 (.1) Lus10000804 [exp] 112 / 2e-29 AT4G21350 127 / 1e-35 plant U-box 8 (.1) Lus10043471 [exp] 118 / 6e-29 AT1G71020 682 / 0.0 ARM repeat superfamily protein (.1.2) Lus10034113 [exp] 118 / 1e-28 AT3G59770 1913 / 0.0 ARABIDOPSIS THALIANA SUPPRESSOR OF ACTIN 9, sacI homology domain-containing protein / WW domain-containing protein (.1.2.3)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0229 [poplar] [flax] RING PF04564 [poplar] [flax] U-box U-box domain
Representative CDS sequence Show only first row Show all	>Potri.004G028800.5 pacid=42794417 polypeptide=Potri.004G028800.5.p locus=Potri.004G028800 ID=Potri.004G028800.5.v4.1 annot-version=v4.1 ATGGCTACACACATCCCTGATGATTTCAAGTGTCCAATTTCACTAGAAATCATGTCCGACCCGGTTATTCTCTCTTCGGGTCATACCTTTGACCGCTCCT CAATTCAACGGTGGCTCGACTCCGGCCACCGTAGTTGTCCAATCACCAAACTCCCCTTACCTGAACACCCTCGTCTTATACCCAACCACGCCTTGAGAAG CCTGATTTCCAGCTTTACAATCCAAAAATCACAACCAGACCCGAACCCGTATCGGAATCCGAACCCATCGAAGAAACACCAAACCCAGTTCTTAATCTCC GCTCTCGTTTCCCCATCTTCGACTCTGGAGTCCAGTCTTCACTCACTGAGTCAACTCACTAGACTCACCAAGCTAGACCCGTGTCTCCGCCGCCAAATCA CCGAGTCTGGTGCAGTCTCAACGATTCTAAACTGTGTCGACTCGACCGAGTCAGAGATCCAAGAGAAAGCACTGGCCCTCCTCCTTAATCTTTCTCTTGA TGATGATAACAAGGTGGGCCTTGTAGCTGAAGGTGTAATTGGTCGGGTCATTAATGTTATCCGGGTCGGGTCGCCAAGTTCTCGGGCCATTGGTTGCACA ATGTTGACAAGTTTGGCTGTTGTGGAAGTCAACAAAGCCACAATTGGAGCGTACCCGAATGGGATAAAAACGCTTATTTGGGTTCTATATAATGGAAAAG GGCGTGAAGTGAGAGAAGCAGCCACTGCGTTGTATGCGATTTGTTCATTTGTTGATAATAGAAAGCGTGCTGTGGAGTGTGGAGCTGTGCCAATTTTGAT GAAAATTGGTGGGATGGGGCTTGAAAGAGCGGTGGAAGTGTTGAGTTTGTTGGTGAAATGTAAGGAAGGGAGGGAGGAAATAAGGAAGGTTAATGGGTGT TTGGAAGTTTTGGTTAAGGTTATTAGGAATGGGAGCGAAAGAGGGGTGCAATGTGCGCTTTTTACATTGAACTGTTTGTGTAGTTTCGCAGAGGAAATGC GTGTAGAGGCCAAAAAAGATGGGGTGTTGGAGATTTGTGTTGGGTTTTTGGATGATGAGAATGAAAAAATTAGAAGGAATGCAGCTAATTTGGTGCAAAA TTTAAGTTGTAGGGGGTAG
AA sequence Show only first row Show all	>Potri.004G028800.5 pacid=42794417 polypeptide=Potri.004G028800.5.p locus=Potri.004G028800 ID=Potri.004G028800.5.v4.1 annot-version=v4.1 MATHIPDDFKCPISLEIMSDPVILSSGHTFDRSSIQRWLDSGHRSCPITKLPLPEHPRLIPNHALRSLISSFTIQKSQPDPNPYRNPNPSKKHQTQFLIS ALVSPSSTLESSLHSLSQLTRLTKLDPCLRRQITESGAVSTILNCVDSTESEIQEKALALLLNLSLDDDNKVGLVAEGVIGRVINVIRVGSPSSRAIGCT MLTSLAVVEVNKATIGAYPNGIKTLIWVLYNGKGREVREAATALYAICSFVDNRKRAVECGAVPILMKIGGMGLERAVEVLSLLVKCKEGREEIRKVNGC LEVLVKVIRNGSERGVQCALFTLNCLCSFAEEMRVEAKKDGVLEICVGFLDDENEKIRRNAANLVQNLSCRG

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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
AT4G21350		PUB8, B80	plant U-box 8 (.1)		Potri.004G028800 [exp]	0	1
AT5G01380	Trihelix		Homeodomain-like superfamily p...		Potri.016G117300 [exp]	2.00	0.8559
					Potri.005G040650 [exp]	4.89	0.8625
AT2G35230		IKU1	HAIKU1, VQ motif-containing pr...		Potri.001G142400 [exp]	8.83	0.8590
AT1G61660	bHLH	bHLH112	basic helix-loop-helix (bHLH) ...		Potri.004G029100 [exp]	8.83	0.8529
AT4G25700		BCH1, B1, CHY1,...	BETA CAROTENOID HYDROXYLASE 1,...		Potri.017G145700 [exp]	9.38	0.8259
AT2G48010		RKF3	receptor-like kinase in in flo...		Potri.014G136466 [exp]	12.24	0.8538
AT2G01620		MEE11	maternal effect embryo arrest ...		Potri.008G133100 [exp]	15.09	0.7878
AT5G40780		LHT1, LTH1	lysine histidine transporter 1...		Potri.001G335300 [exp]	15.87	0.8429	Pt-LHT1.2
AT4G28300			Protein of unknown function (D...		Potri.013G131600 [exp]	18.73	0.8309
AT4G31780		UGT81A1, EMB279...	UDP-glycosyl transferase 81A1,...		Potri.006G266500 [exp]	22.62	0.8097

Compare expression of checked genes

Potri.004G028800 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.