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 AT1G76050 505 / 1e-178 Pseudouridine synthase family protein (.1.2) AT3G19440 78 / 2e-15 Pseudouridine synthase family protein (.1) AT3G52260 73 / 5e-14 Pseudouridine synthase family protein (.1.2.3) AT5G51140 66 / 1e-11 Pseudouridine synthase family protein (.1.2) AT1G56345 66 / 1e-11 Pseudouridine synthase family protein (.1) AT1G78910 62 / 2e-10 Pseudouridine synthase family 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.008G042000 [exp] 77 / 4e-15 AT3G52260 494 / 5e-176 Pseudouridine synthase family protein (.1.2.3) Potri.009G095700 [exp] 71 / 4e-13 AT3G19440 483 / 2e-168 Pseudouridine synthase family protein (.1) Potri.013G009300 [exp] 68 / 2e-12 AT1G56345 333 / 9e-114 Pseudouridine synthase family protein (.1) Potri.004G228200 [exp] 65 / 4e-11 AT1G78910 648 / 0.0 Pseudouridine synthase family protein (.1) Potri.015G101300 [exp] 63 / 1e-10 AT5G51140 512 / 0.0 Pseudouridine synthase family protein (.1.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10017250 [exp] 536 / 0 AT1G76050 531 / 0.0 Pseudouridine synthase family protein (.1.2) Lus10005619 [exp] 481 / 2e-162 AT1G76040 773 / 0.0 calcium-dependent protein kinase 29 (.1.2) Lus10023503 [exp] 85 / 5e-18 AT3G52260 498 / 6e-178 Pseudouridine synthase family protein (.1.2.3) Lus10002811 [exp] 85 / 1e-17 AT3G19440 445 / 1e-153 Pseudouridine synthase family protein (.1) Lus10027863 [exp] 76 / 8e-15 AT3G19440 424 / 1e-145 Pseudouridine synthase family protein (.1) Lus10040385 [exp] 73 / 8e-14 AT3G52260 488 / 2e-173 Pseudouridine synthase family protein (.1.2.3) Lus10029848 [exp] 72 / 1e-13 AT1G56345 358 / 7e-124 Pseudouridine synthase family protein (.1) Lus10022437 [exp] 69 / 2e-12 AT5G51140 505 / 1e-177 Pseudouridine synthase family protein (.1.2) Lus10034804 [exp] 64 / 1e-10 AT1G78910 655 / 0.0 Pseudouridine synthase family protein (.1) Lus10033350 [exp] 62 / 3e-10 AT1G78910 658 / 0.0 Pseudouridine synthase family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0649 [poplar] [flax] PseudoU_synth PF00849 [poplar] [flax] PseudoU_synth_2 RNA pseudouridylate synthase CL0492 [poplar] [flax] S4 PF01479 [poplar] [flax] S4 S4 domain
Representative CDS sequence Show only first row Show all	>Potri.002G016800.1 pacid=42776972 polypeptide=Potri.002G016800.1.p locus=Potri.002G016800 ID=Potri.002G016800.1.v4.1 annot-version=v4.1 ATGCTCTCGATTTCCTCTGTATCCCGTTGCTCAGCTCCCTCTTTCTTCCTCTCTCAAAAGCCAACAGCTTCAAGACTCCTCACGGTTCACTCTAGTTCCA CAAGGGAGCCTAATTCGAACCAGAATCCTGGCCAAAGAATCAATTACTCTGGTGTAAAACTCGAGGAGTCAGTAGATTCTAAGTCAGGAAAGTCAAGACT TGATTCTTGGATTTCTTCTCGCATTTCTGGCATCAGTAGAGCTCGTGTTCAGTCTAGTATTAAATCAGGACTTGTCTCTGTCAATGGAAAGGTTATCGAT AAGGTTTCGCATAATGTAAAAGCTGGAGATAAGGTGAATTGCGTAATTTCAGAGTTGCAACCTTTGAGGGCTGAACCTGAAAATATACCTTTGGATATTG TCTATGAAGATGAGAATGTTCTAGTAGTTAACAAACCTGCCCACATGGTTGTTCATCCTGCGCCTGGTAATGCTACCGGCACGCTGGTTAATGGGATACT ACACCATTGTAGTCTTCCAACAGTTTCGAGCCAGGAAGTTTTGTCCGGTGCAGAAGATGTTTCTGATGATGATGATGAAGGGTTATGTTCTAGCTCATAC GCTGCGTCTGTTCGACCAGGGATAGTGCATCGGTTGGATAAAGGAACTAGTGGATTGCTTGTTGTTGCTAAGGATGAACATTCGCATGCTCATTTATCTG AGCAATTCAAGCTACACACAATTAAGAGAGTATATGTTAGTCTTACTTGTGGAGTGCCCGCACCAATGGCAGGACGTATTGACGTTCCTATTGGCCGAGA TGTGAGTAACAGGATACGTATGGCTGCTATAGTCGAACCAAACCGGGGACAGGCCCGCCATGCTGCTAGTAGGTATAAAGTGATTGAAATACTAGCTGGA GGTGGTTCAGCTCTGGTTGAGTGGAGGTTAGAAACTGGTCGCACTCATCAGATCCGTGCACATGCAAAGTACATCGGAATTCCTCTGTTAGGTGATGAGG TTTATGGAGGGACCCAAAACATGGCTTTGTCGCTGCTTCGATCCAGAACCCAGCCTAGCTGTCATCGCCAACTTTCTTTATCACTTTCAGGACTAGAGAG GCCTTGCCTCCATGCTTTGGCTCTCGGGTTCACACATCCATGCACAGGGAAAGAAATACATTTTTCTTGCCCACCTCCTCCAGATTTTACAGAGATCTTG AGCCAGCTTCGGGAGATGGGAACAGAGAAGCTTTCATTCAAGGAATGA
AA sequence Show only first row Show all	>Potri.002G016800.1 pacid=42776972 polypeptide=Potri.002G016800.1.p locus=Potri.002G016800 ID=Potri.002G016800.1.v4.1 annot-version=v4.1 MLSISSVSRCSAPSFFLSQKPTASRLLTVHSSSTREPNSNQNPGQRINYSGVKLEESVDSKSGKSRLDSWISSRISGISRARVQSSIKSGLVSVNGKVID KVSHNVKAGDKVNCVISELQPLRAEPENIPLDIVYEDENVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTVSSQEVLSGAEDVSDDDDEGLCSSSY AASVRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIKRVYVSLTCGVPAPMAGRIDVPIGRDVSNRIRMAAIVEPNRGQARHAASRYKVIEILAG GGSALVEWRLETGRTHQIRAHAKYIGIPLLGDEVYGGTQNMALSLLRSRTQPSCHRQLSLSLSGLERPCLHALALGFTHPCTGKEIHFSCPPPPDFTEIL SQLREMGTEKLSFKE

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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
AT1G76050			Pseudouridine synthase family ...		Potri.002G016800 [exp]	0	1
AT3G10350			P-loop containing nucleoside t...		Potri.008G037100 [exp]	1.00	0.9547
AT4G02990		RUG2, BSM	RUGOSA 2, BELAYA SMERT, Mitoch...		Potri.014G137400 [exp]	3.00	0.9005
AT1G14140			Mitochondrial substrate carrie...		Potri.010G165900 [exp]	4.00	0.8967
AT1G49880		EMB3106, AtErv1...	EMBRYO DEFECTIVE 3106, Erv1/Al...		Potri.009G090200 [exp]	4.24	0.8895
AT3G57080		RPB5B, NRPE5	RNA POLYMERASE II FIFTH LARGES...		Potri.016G038500 [exp]	6.00	0.8775
AT1G77122			Uncharacterised protein family...		Potri.002G071700 [exp]	6.48	0.8941
AT1G49510		EMB1273	embryo defective 1273 (.1)		Potri.005G149500 [exp]	7.48	0.8909
AT5G66520			Tetratricopeptide repeat (TPR)...		Potri.017G141200 [exp]	8.94	0.8781
AT3G13550		EMB144, COP10, ...	FUSCA 9, EMBRYO DEFECTIVE 144,...		Potri.001G089300 [exp]	9.32	0.8650
AT5G63010			Transducin/WD40 repeat-like su...		Potri.014G000900 [exp]	11.18	0.8721

Compare expression of checked genes

Potri.002G016800 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.