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 AT2G47990 587 / 0 SWA1, EDA13, EDA19 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) AT3G49660 83 / 3e-17 AtWDR5a human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1) AT4G29830 83 / 4e-17 VIP3 vernalization independence 3, Transducin/WD40 repeat-like superfamily protein (.1) AT1G49040 74 / 1e-13 SCD1 STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3) AT1G11160 73 / 2e-13 Transducin/WD40 repeat-like superfamily protein (.1) AT1G61210 73 / 3e-13 DWA3 DWD hypersensitive to ABA 3, Transducin/WD40 repeat-like superfamily protein (.1.2) AT2G41500 71 / 1e-12 EMB2776, LIS LACHESIS, WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related (.1) AT1G53090 70 / 2e-12 SPA4 SPA1-related 4 (.1.2) AT2G32950 68 / 8e-12 FUS1, EMB168, DET340, ATCOP1, COP1 FUSCA 1, EMBRYO DEFECTIVE 168, DEETIOLATED MUTANT 340, ARABIDOPSIS THALIANA CONSTITUTIVE PHOTOMORPHOGENIC 1, Transducin/WD40 repeat-like superfamily protein (.1) AT2G46340 66 / 5e-11 SPA1 SUPPRESSOR OF PHYA-105 1, SPA (suppressor of phyA-105) protein family (.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.014G135600 [exp] 895 / 0 AT2G47990 614 / 0.0 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) Potri.006G145800 [exp] 79 / 9e-16 AT4G29830 486 / 2e-174 vernalization independence 3, Transducin/WD40 repeat-like superfamily protein (.1) Potri.006G045800 [exp] 80 / 2e-15 AT2G41500 614 / 0.0 LACHESIS, WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related (.1) Potri.005G148500 [exp] 75 / 2e-14 AT3G49660 503 / 0.0 human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1) Potri.011G045500 [exp] 74 / 1e-13 AT1G61210 723 / 0.0 DWD hypersensitive to ABA 3, Transducin/WD40 repeat-like superfamily protein (.1.2) Potri.015G041600 [exp] 72 / 1e-13 AT1G18080 537 / 0.0 RECEPTOR FOR ACTIVATED C KINASE 1 A, Transducin/WD40 repeat-like superfamily protein (.1) Potri.012G052700 [exp] 70 / 6e-13 AT1G18080 575 / 0.0 RECEPTOR FOR ACTIVATED C KINASE 1 A, Transducin/WD40 repeat-like superfamily protein (.1) Potri.015G049500 [exp] 72 / 7e-13 AT1G49040 1810 / 0.0 STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3) Potri.002G051900 [exp] 70 / 9e-13 AT4G02730 524 / 0.0 human WDR5 \(WD40 repeat\) homolog b, Transducin/WD40 repeat-like 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 Lus10017890 [exp] 636 / 0 AT2G47990 584 / 0.0 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) Lus10015340 [exp] 629 / 0 AT2G47990 594 / 0.0 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) Lus10035065 [exp] 499 / 2e-173 AT2G47990 528 / 0.0 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) Lus10008305 [exp] 367 / 9e-125 AT2G47990 358 / 1e-121 SLOW WALKER1, EMBRYO SAC DEVELOPMENT ARREST 19, EMBRYO SAC DEVELOPMENT ARREST 13, transducin family protein / WD-40 repeat family protein (.1) Lus10017159 [exp] 85 / 7e-18 AT4G29830 545 / 0.0 vernalization independence 3, Transducin/WD40 repeat-like superfamily protein (.1) Lus10021571 [exp] 85 / 9e-18 AT4G29830 543 / 0.0 vernalization independence 3, Transducin/WD40 repeat-like superfamily protein (.1) Lus10003080 [exp] 74 / 3e-14 AT1G18080 506 / 0.0 RECEPTOR FOR ACTIVATED C KINASE 1 A, Transducin/WD40 repeat-like superfamily protein (.1) Lus10018458 [exp] 76 / 4e-14 AT1G11160 668 / 0.0 Transducin/WD40 repeat-like superfamily protein (.1) Lus10011224 [exp] 76 / 4e-14 AT1G11160 665 / 0.0 Transducin/WD40 repeat-like superfamily protein (.1) Lus10033092 [exp] 76 / 5e-14 AT1G52360 1481 / 0.0 Coatomer, beta' subunit (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0186 [poplar] [flax] Beta_propeller PF00400 [poplar] [flax] WD40 WD domain, G-beta repeat CL0186 [poplar] [flax] PF09384 [poplar] [flax] UTP15_C UTP15 C terminal
Representative CDS sequence Show only first row Show all	>Potri.002G213500.2 pacid=42779594 polypeptide=Potri.002G213500.2.p locus=Potri.002G213500 ID=Potri.002G213500.2.v4.1 annot-version=v4.1 ATGGCAGACCTTCTTGTAGAACAACCCCGAGAAATCACCATCTCTAAAACCTTCCCTACAAAACCAAAGCTAAAACCCAAAGCTAAAACCCCATCGAAAA CCCCTGAATCCAAATACTGGTCTTCCTTCAAATCCCACCAAATTTCAAACCTCATCTCCTCCATCCCTTCCATTGATTTCTCACCTATATCCCCACACCA ATTTGCCGCCACCAATTCCGCCTCCCTCACTCTCTTCTCCTCCCAAACGCTCTCTCCCACCTCCACCATCTCCTTCTCCGATGTTGTCACCTCCTGCTCC TTCCGCTGCGACGGCTCCCTGATCGCTGCCTCAGATCTCTCCGGCCTTATTCGGGTATTCGATGTAAAGACACGAACCCCTCTTCGTCGCCTGAAGTCCC ATACGCGCCCTGTTCGTTTTGTTAAGTACCCGTTACTCGATAAGCTACATTTGGTGTCTGGTGGTGATGATTCTGTTGTTAAATACTGGGATGTTGCTGG AGAGAGTGTGGTTTCGGACTTGTATGGTCACAGGGACTATGCGAGGTGTGGTGATTGCTCTCCGATTAATGGAGAGATATTTGTTACTGGGTCTTATGAT CACACTGTAAAGCTGTGGGATGTGAGGGTTGATAGTAAGGAATCAGTTATCGAAGTGAATCATGGAAAGCCAGTTGAGGATGTGATTTTTTTGCCCTCAG GCGGAATGGTTGCGACTGCAGGAGGGAATAGTTTGAAGATATGGGATTTGATTGGAGGAGGGAAGATGGTTTATTCGATGGAGAGTCATAACAAGACTGT TACTTCTATTTGTGTAGGGAAAGTAGGGAAAGAGAGTGGAGAGGAGGCTTTGCAGTATAGGATTTTGAGTGTGGCTTTAGATGGGTATATGAAGGTTTTT GATTATGCAAAAATGAAGGTTACTCATTCCATGAGGTTTCCTGCCCCGCTTATGTCCATTGGGTTTTCTCCGGATTGTATGACTAGGGTCATTGGGTCTT CCAATGGGATTATATTTGCTGGGAGGAGAAAAGGAAAGGAGGATGTGGGAGAGAGTAAATCAGGGAATTTTTGGGCGCTAGGCAGTGTAGAGGAACCACA GAGGCGGGCTTTGAGGCCAACATATTTTAGGTATTTTCATAGGAGTCAAGGGGAGAAGCCAAATGAGGGGGATCATTTGATAATGAGGCCAAAGAAGGTG AAATTGTCGGAGCATGATAAGTTGTTGAAGAAGTTTAGGCATAAAGAAGCGCTGGTTTCAGTTTTGAGTGGGAAGAATCCAGAGAATGTGGTGGCTGTGA TGGAGGAAATGGTGGCAAGGAGGAAGTTATTGAAATGCGTTGTGAATTTGGATGAGGAGGAGCTTGGGTTGTTGTTGGGTTTCTTGCATAAGCACTCAAC TATGCCAAGACATTCAGGTTTATTGATGGGCTTGACTAAAAAGGTACTTGAAATGCGGGCTGATGATATTAGAGCTTCTGATGCTTTGAAAAGTCATATT AGAAACCTTAAAAGGTCAGTTGAAGAGGAGATCAGAATTCAACATTCACTACAAGAGATACAGGGTATAATTTCTCCTTTATTGAGAATTGCCGGGAGAA GATAG
AA sequence Show only first row Show all	>Potri.002G213500.2 pacid=42779594 polypeptide=Potri.002G213500.2.p locus=Potri.002G213500 ID=Potri.002G213500.2.v4.1 annot-version=v4.1 MADLLVEQPREITISKTFPTKPKLKPKAKTPSKTPESKYWSSFKSHQISNLISSIPSIDFSPISPHQFAATNSASLTLFSSQTLSPTSTISFSDVVTSCS FRCDGSLIAASDLSGLIRVFDVKTRTPLRRLKSHTRPVRFVKYPLLDKLHLVSGGDDSVVKYWDVAGESVVSDLYGHRDYARCGDCSPINGEIFVTGSYD HTVKLWDVRVDSKESVIEVNHGKPVEDVIFLPSGGMVATAGGNSLKIWDLIGGGKMVYSMESHNKTVTSICVGKVGKESGEEALQYRILSVALDGYMKVF DYAKMKVTHSMRFPAPLMSIGFSPDCMTRVIGSSNGIIFAGRRKGKEDVGESKSGNFWALGSVEEPQRRALRPTYFRYFHRSQGEKPNEGDHLIMRPKKV KLSEHDKLLKKFRHKEALVSVLSGKNPENVVAVMEEMVARRKLLKCVVNLDEEELGLLLGFLHKHSTMPRHSGLLMGLTKKVLEMRADDIRASDALKSHI RNLKRSVEEEIRIQHSLQEIQGIISPLLRIAGRR

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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
AT2G47990		SWA1, EDA13, ED...	SLOW WALKER1, EMBRYO SAC DEVEL...		Potri.002G213500 [exp]	0	1
AT3G07050		NSN1	nucleostemin-like 1, GTP-bindi...		Potri.002G241100 [exp]	1.41	0.8696
AT1G03360		ATRRP4	ribosomal RNA processing 4 (.1...		Potri.003G194400 [exp]	4.58	0.7999
AT1G15440		ATPWP2	\(PERIODIC TRYPTOPHAN PROTEIN ...		Potri.003G060500 [exp]	5.83	0.8504
AT5G67530		ATPUB49	plant U-box 49 (.1)		Potri.005G148900 [exp]	7.48	0.7847
AT3G18600			P-loop containing nucleoside t...		Potri.001G250700 [exp]	8.94	0.7813
AT4G02400			U3 ribonucleoprotein (Utp) fam...		Potri.002G203700 [exp]	10.19	0.7978
AT3G21540			transducin family protein / WD...		Potri.006G121100 [exp]	14.49	0.8069
AT3G63090			Ubiquitin carboxyl-terminal hy...		Potri.002G220000 [exp]	14.83	0.7628
AT5G54910			DEA(D/H)-box RNA helicase fami...		Potri.001G423300 [exp]	14.96	0.8155
AT3G11450			DnaJ domain ;Myb-like DNA-bind...		Potri.003G190000 [exp]	14.96	0.7459

Compare expression of checked genes

Potri.002G213500 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.