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 AT5G03340 1459 / 0 ATPase, AAA-type, CDC48 protein (.1) AT3G09840 1457 / 0 ATCDC48, CDC48A, CDC48 cell division cycle 48 (.1) AT3G53230 1437 / 0 ATPase, AAA-type, CDC48 protein (.1) AT3G01610 444 / 4e-144 CDC48C, EMB1354 embryo defective 1354, cell division cycle 48C (.1) AT2G03670 407 / 2e-132 CDC48B cell division cycle 48B (.1) AT1G03000 278 / 2e-80 PEX6 peroxin 6 (.1) AT3G56690 264 / 5e-75 CIP111 Cam interacting protein 111 (.1) AT5G08470 257 / 3e-72 EMB2817, PEX1 EMBRYO DEFECTIVE 2817, peroxisome 1 (.1) AT1G05910 232 / 1e-63 cell division cycle protein 48-related / CDC48-related (.1) AT1G53750 214 / 9e-62 RPT1A regulatory particle triple-A 1A (.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.015G080600 [exp] 1544 / 0 AT5G03340 1455 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Potri.016G091600 [exp] 1461 / 0 AT3G53230 1484 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Potri.006G125500 [exp] 1457 / 0 AT5G03340 1496 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Potri.017G108200 [exp] 1298 / 0 AT5G03340 1311 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Potri.013G151600 [exp] 452 / 6e-147 AT3G01610 747 / 0.0 embryo defective 1354, cell division cycle 48C (.1) Potri.001G128700 [exp] 419 / 7e-137 AT2G03670 766 / 0.0 cell division cycle 48B (.1) Potri.014G133000 [exp] 275 / 3e-79 AT1G03000 1165 / 0.0 peroxin 6 (.1) Potri.001G174100 [exp] 271 / 4e-77 AT5G08470 1259 / 0.0 EMBRYO DEFECTIVE 2817, peroxisome 1 (.1) Potri.006G035000 [exp] 259 / 5e-73 AT3G56690 1080 / 0.0 Cam interacting protein 111 (.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 Lus10021442 [exp] 1431 / 0 AT5G03340 1520 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10021441 [exp] 1428 / 0 AT5G03340 1529 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10016123 [exp] 1426 / 0 AT5G03340 1526 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10016124 [exp] 1417 / 0 AT5G03340 1511 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10037385 [exp] 1417 / 0 AT5G03340 1501 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10023018 [exp] 1324 / 0 AT5G03340 1419 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10001402 [exp] 781 / 0 AT3G53230 803 / 0.0 ATPase, AAA-type, CDC48 protein (.1) Lus10020255 [exp] 441 / 1e-139 AT3G56690 1066 / 0.0 Cam interacting protein 111 (.1) Lus10018033 [exp] 426 / 3e-139 AT2G03670 813 / 0.0 cell division cycle 48B (.1) Lus10039722 [exp] 431 / 8e-139 AT3G01610 754 / 0.0 embryo defective 1354, cell division cycle 48C (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0332 [poplar] [flax] AcetylDC-like PF02359 [poplar] [flax] CDC48_N Cell division protein 48 (CDC48), N-terminal domain CL0402 [poplar] [flax] Cdc48_2-like PF02933 [poplar] [flax] CDC48_2 Cell division protein 48 (CDC48), domain 2 CL0023 [poplar] [flax] P-loop_NTPase PF05496 [poplar] [flax] RuvB_N Holliday junction DNA helicase RuvB P-loop domain CL0023 [poplar] [flax] P-loop_NTPase PF07724 [poplar] [flax] AAA_2 AAA domain (Cdc48 subfamily)
Representative CDS sequence Show only first row Show all	>Potri.012G088200.3 pacid=42784327 polypeptide=Potri.012G088200.3.p locus=Potri.012G088200 ID=Potri.012G088200.3.v4.1 annot-version=v4.1 ATGGCCGATCCAAGCTCTAGTCAGCCCTCTCCTTCCACAGACCCCAGTAAGAAAGATTATTCGACTGCAATTTTGGAGCGAAAGAAGTCTCCCAATCGAC TTGTTATTGACGAGGCCATCAATGATGATAACTCTGTGGTGGCTATGCATCCTGCTACCATGGAAAAGCTTCAGTTTTTTCGTGGTGACACTGTGCTAAT TAAGGGAAAGAAGCGAAAAGACACTGTTTGCATTGTTCTTGCTGATGAACAATGTGAGGAACCGAAAATCAGATTGAACAAAGTTGTCAGGGCTAATCTT AGAGTCCGCCTTGGAGATGTTGTGTCTGTCCATCAATGTCCTGATGTGAAGTATGGGAAGCGAGTTCATATCCTTCCTATTGATGACACTATCGAGGGTG TTACTGGAAGTCTTTTTGATGCATATTTAAAGCCATATTTCTTGGAATCGTACCGCCCTGTAAGAAAAGGTGACCTTTTCCTTGTCAGGGGTGGCATGCG CAGTGTTGAGTTCAAAGTAATTGAGACAGACCCTGGTGAATACTGTGTTGTGGCACCAGACACCGAGATCTTTTGTGAAGGAGAGCCCATCAAACGTGAG GATGAGGAGAGGTTGAATGAAGTGGGCTATGATGATGTTGGTGGTGTTAGGAAACAGATGGCTCAGATTCGTGAGCTAGTTGAACTTCCTCTTAGGCACC CACAGCTTTTCAAATCAATTGGTGTTAAACCACCAAAAGGTATCTTGCTGTATGGGCCACCTGGGTCTGGTAAAACTCTGATTGCAAGAGCTGTTGCTAA TGAGACAGGTGCATTCTTCTTTTTGATTAATGGTCCTGAGATAATGTCAAAGCTGGCTGGTGAGAGTGAAAGCAACTTGAGGAAGGCATTTGAGGAAGCT GAAAAGAATGCTCCATCCATAATTTTTATTGATGAGTTAGATTCTATTGCTCCCAAGAGGGAAAAGACTCACGGTGAAGTGGAGAGGCGTATAGTTTCAC AGCTTTTGACTTTAATGGATGGCCTCAAGTCACGGGCACATGTGATTGTTATGGGAGCTACCAATAGGCCCAATAGCATTGACCCAGCTTTGAGGAGATT TGGGAGATTTGATCGAGAGATTGACATTGGTGTGCCTGATGAAGTTGGACGGTTGGAGGTCCTTAGAATTCATACTAAAAATATGAAACTTGCTGAAGAT GTTGATCTTGAAAGAGTTGCAAAAGATACCCATGGTTATGTTGGTGCTGATCTTGCAGCTCTTTGTACTGAGGCTGCTCTTCAGTGTATTAGGGAGAAAA TGGATGTTATTGATTTAGAGGATGAGACAGTTGATGCCGAGGTGTTAAACTCAATGGCTGTGACTAATGACCACTTCCAAACTGCATTGGGAACTTCAAA TCCATCTGCGTTGCGCGAAACAGTTGTGGAGGTTCCTAACGTCTCATGGGAGGATATTGGTGGATTAGAGAATATTAAAAGAGAGCTTCAAGAGACTGTC CAATATCCCGTGGAGCATCCTGAGAAGTTTGAGAAATTTGGCATGTCACCTTCTAAAGGTGTTCTCTTTTATGGACCTCCTGGCTGTGGTAAAACCCTAC TTGCAAAGGCAATTGCTAATGAATGCCAGGCCAACTTCATAAGTGTCAAGGGTCCTGAGCTGCTAACTATGTGGTTTGGAGAAAGTGAAGCAAATGTGCG GGAGATATTTGACAAAGCACGGCAGTCAGCTCCTTGTGTACTTTTCTTTGATGAACTTGATTCCATTGCTACTCAGCGGGGCAACTCTTCTGGAGATGCT GGGGGAGCTGCAGATAGAGTCTTGAATCAACTTCTGACAGAAATGGATGGCATGACGGCAAAGAAAACAGTTTTTATCATTGGTGCAACAAACAGGCCAG ATATTATCGACCCAGCATTGCTCAGGCCTGGGCGTCTGGACCAGTTGATTTATATACCTCTTCCTGATGAGGCTTCCCGTCTTCAGATATTTAAAGCATG TTTGCGCAAGTCACCTGTTTCTAGGGATGTTGACCTGGCAGCTCTTGCACGATATACTCATGGATTTAGTGGTGCTGATATCACTGAAATTTGTCAACGT GCCTGCAAATATGCCATTAGAGAAAATATTGAGAAGGATATTGAGAAGGAGAAAAGGAAGCAAGACAATCCTGAAGCAATGGAAGAAGATGATGTGGATG AGGTCCCAGAAATAACGGCAGCACATTTTGAGGAGTCAATGAAATTTGCACGTCGAAGTGTCAGTGATGCAGACATCAGGAAGTACCAGCTCTTTGCTCA GACCTTACAGCAATCTCGTGGATTTGGTACTGAGTTCCGGTTTCCAGACCGTGCTGAGAATGTGGCAGGTGAAGGAGCCACTGATCCATTTGCTCCAGCA ACTATTGCTGCCGAGGAGGATGATCTATACAGCTGA
AA sequence Show only first row Show all	>Potri.012G088200.3 pacid=42784327 polypeptide=Potri.012G088200.3.p locus=Potri.012G088200 ID=Potri.012G088200.3.v4.1 annot-version=v4.1 MADPSSSQPSPSTDPSKKDYSTAILERKKSPNRLVIDEAINDDNSVVAMHPATMEKLQFFRGDTVLIKGKKRKDTVCIVLADEQCEEPKIRLNKVVRANL RVRLGDVVSVHQCPDVKYGKRVHILPIDDTIEGVTGSLFDAYLKPYFLESYRPVRKGDLFLVRGGMRSVEFKVIETDPGEYCVVAPDTEIFCEGEPIKRE DEERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA EKNAPSIIFIDELDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEVLRIHTKNMKLAED VDLERVAKDTHGYVGADLAALCTEAALQCIREKMDVIDLEDETVDAEVLNSMAVTNDHFQTALGTSNPSALRETVVEVPNVSWEDIGGLENIKRELQETV QYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGNSSGDA GGAADRVLNQLLTEMDGMTAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPVSRDVDLAALARYTHGFSGADITEICQR ACKYAIRENIEKDIEKEKRKQDNPEAMEEDDVDEVPEITAAHFEESMKFARRSVSDADIRKYQLFAQTLQQSRGFGTEFRFPDRAENVAGEGATDPFAPA TIAAEEDDLYS

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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
AT5G03340			ATPase, AAA-type, CDC48 protei...		Potri.012G088200 [exp]	0	1
AT4G11560			bromo-adjacent homology (BAH) ...		Potri.003G127400 [exp]	2.23	0.8841
AT5G38600			Proline-rich spliceosome-assoc...		Potri.017G111300 [exp]	2.44	0.8807
AT1G76900	TUB	AtTLP1	tubby like protein 1 (.1.2)		Potri.005G192400 [exp]	4.24	0.8469
AT1G17820			Putative integral membrane pro...		Potri.017G155000 [exp]	5.29	0.8517
AT4G24690		AtNBR1	Arabidopsis thaliana next to B...		Potri.015G084000 [exp]	5.65	0.8609
AT3G62860			alpha/beta-Hydrolases superfam...		Potri.014G129000 [exp]	6.78	0.8193
AT5G35560			DENN (AEX-3) domain-containing...		Potri.006G143000 [exp]	6.92	0.8537
AT5G03530		ATRABALPHA, AtR...	ARABIDOPSIS THALIANA RAB GTPAS...		Potri.008G032000 [exp]	8.36	0.8452	Pt-RAB1.9
AT5G53150			DNAJ heat shock N-terminal dom...		Potri.001G057200 [exp]	8.83	0.8399
AT3G15180			ARM repeat superfamily protein...		Potri.001G396500 [exp]	10.09	0.7995

Compare expression of checked genes

Potri.012G088200 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.