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 AT3G01150 638 / 0 ATPTB1, PTB polypyrimidine tract-binding protein 1 (.1.2) AT5G53180 569 / 0 ATPTB2 polypyrimidine tract-binding protein 2 (.1.2) AT1G43190 156 / 2e-42 PTB3 polypyrimidine tract-binding protein 3 (.1.2.3) AT4G19610 47 / 3e-05 nucleotide binding;nucleic acid binding;RNA binding (.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.017G085400 [exp] 793 / 0 AT3G01150 607 / 0.0 polypyrimidine tract-binding protein 1 (.1.2) Potri.012G029300 [exp] 570 / 0 AT5G53180 603 / 0.0 polypyrimidine tract-binding protein 2 (.1.2) Potri.015G020800 [exp] 554 / 0 AT5G53180 581 / 0.0 polypyrimidine tract-binding protein 2 (.1.2) Potri.005G194700 [exp] 158 / 3e-43 AT1G43190 745 / 0.0 polypyrimidine tract-binding protein 3 (.1.2.3) Potri.002G066000 [exp] 154 / 7e-42 AT1G43190 726 / 0.0 polypyrimidine tract-binding protein 3 (.1.2.3)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10005233 [exp] 649 / 0 AT3G01150 598 / 0.0 polypyrimidine tract-binding protein 1 (.1.2) Lus10030688 [exp] 603 / 0 AT3G01150 557 / 0.0 polypyrimidine tract-binding protein 1 (.1.2) Lus10014931 [exp] 555 / 0 AT5G53180 617 / 0.0 polypyrimidine tract-binding protein 2 (.1.2) Lus10038820 [exp] 497 / 8e-175 AT5G53180 567 / 0.0 polypyrimidine tract-binding protein 2 (.1.2) Lus10028566 [exp] 112 / 8e-27 AT1G43190 678 / 0.0 polypyrimidine tract-binding protein 3 (.1.2.3) Lus10018871 [exp] 107 / 8e-25 AT1G43190 680 / 0.0 polypyrimidine tract-binding protein 3 (.1.2.3) Lus10043204 [exp] 46 / 8e-05 AT5G61960 728 / 0.0 MEI2-like protein 1 (.1.2) Lus10032537 [exp] 44 / 0.0004 AT5G61960 664 / 0.0 MEI2-like protein 1 (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0221 [poplar] [flax] RRM PF00076 [poplar] [flax] RRM_1 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) CL0221 [poplar] [flax] RRM PF13893 [poplar] [flax] RRM_5 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
Representative CDS sequence Show only first row Show all	>Potri.004G123300.1 pacid=42795041 polypeptide=Potri.004G123300.1.p locus=Potri.004G123300 ID=Potri.004G123300.1.v4.1 annot-version=v4.1 ATGTCAACGTCGGGACAGCCACAATTCCGGTACACACAAACACCATCAAAGGTTTTGCATCTACGAAACCTTCCATGGGAGTGCACAGAAGAAGAGCTAA TCGAGCTCTGTAAACCTTTTGGAAGGATCGTAAATACTAAGTGCAATGTGGGCGCCAATCGGAACCAAGCCTTTGTCGAATTCGTAGACCAAAATCAGGC AATACAAATGGTATCGTATTATGCGTCGTCGTCGGACCCAGCGCAGGTTCGGGGTAAAACGGTGTATATTCAATATTCGAACAGGCATGAAATTGTGAAC AATAAGAGTCCAGGTGATAATCCTGGAAATGTATTGTTGGTTACCATCGAGGGTGTTGAAGCTGGTGATGTCAGCATCGATGTCATTCACTTGGTGTTTT CTGCTTTTGGCTATGTGCACAAAATTGCTACTTTTGAAAAGGCTGCTGGTTTCCAGGCATTAATTCAATTCACTGATTCTGAAACTGCATCTTCAGCAAG AAATGCCTTGGATGGGAGAAGCATACCCAGGTACTTGCTTCCAGAGCATGTTGGTTCCTGCCACTTACGCATTTCGTATTCTGCGCATACCGATCTCAAT ATCAAGTTCCAGTCCCATAGGAGCAGAGACTATACAAATCCATATCTCCCTGTGAATCCTACTGCAATCGAGGGACCTGTTCAGCCTACTGTTGGCGTTG ATGGAAAGAAGAAAGAACCTGAGAGCAATGTGCTTCTTGCATCAATTGAGAATATGCAGTATGCCGTCACCATCGATGTTCTTCACACTGTATTCTCTGC ATTTGGTACTGTCCAGAAGATTGCTATATTCGAGAAAAATGGTGGAACACAGGCGCTAATTCAGTACCCAGATGTTGCGACTGCAGCAGTAGCCAAAGAA ACTCTGGAGGGACACTGCATTTATGATGGTGGCTATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGGCCTATAGTGATAAAA GTAGAGATTACACCATCCCAGATGCAAGTTTGATTGCAGCACAAGCTCCTGGCCTTCACACTGCTCCTACAATGTGGCAGAATCCTCAGGCTGGCTCAAT GTACACTGGGAATAACTATGCTACCACTGCTGCTGTTCCAGTTCAAGTTCCTCCTGGGCAAGTGCCAGCTTGGGATCCAACCATGCAGGCAGGTGGACAA GGCTATGCATCAGTTCCTGGCACTTATCCTGGTCAAACATATCCAACACCTCCAGCGTCTGCTTATGCTACTGCTGCAATACCTGCAGGCTCCTCTCCCC GGTCACATAGCAGCCCAATTTCTCATAGTGTGGCTTCTATGGCAATGAGCCACCCAGGGATGCAGTCAAACTTGCGACCTAGTGGTGCTTCACCTCCGGG TCAGCCTCCATATTATGGTTGA
AA sequence Show only first row Show all	>Potri.004G123300.1 pacid=42795041 polypeptide=Potri.004G123300.1.p locus=Potri.004G123300 ID=Potri.004G123300.1.v4.1 annot-version=v4.1 MSTSGQPQFRYTQTPSKVLHLRNLPWECTEEELIELCKPFGRIVNTKCNVGANRNQAFVEFVDQNQAIQMVSYYASSSDPAQVRGKTVYIQYSNRHEIVN NKSPGDNPGNVLLVTIEGVEAGDVSIDVIHLVFSAFGYVHKIATFEKAAGFQALIQFTDSETASSARNALDGRSIPRYLLPEHVGSCHLRISYSAHTDLN IKFQSHRSRDYTNPYLPVNPTAIEGPVQPTVGVDGKKKEPESNVLLASIENMQYAVTIDVLHTVFSAFGTVQKIAIFEKNGGTQALIQYPDVATAAVAKE TLEGHCIYDGGYCKLHLSYSRHTDLNVKAYSDKSRDYTIPDASLIAAQAPGLHTAPTMWQNPQAGSMYTGNNYATTAAVPVQVPPGQVPAWDPTMQAGGQ GYASVPGTYPGQTYPTPPASAYATAAIPAGSSPRSHSSPISHSVASMAMSHPGMQSNLRPSGASPPGQPPYYG

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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
AT3G01150		ATPTB1, PTB	polypyrimidine tract-binding p...		Potri.004G123300 [exp]	0	1
AT3G10980		SAG20, WI12, AT...	PLAC8 family protein (.1)		Potri.010G182100 [exp]	4.89	0.6424
AT5G11960			Protein of unknown function (D...		Potri.006G226000 [exp]	8.24	0.6825
AT2G19400			AGC (cAMP-dependent, cGMP-depe...		Potri.006G146900 [exp]	26.32	0.6455
AT3G55030		PGPS2	phosphatidylglycerolphosphate ...		Potri.010G214900 [exp]	29.39	0.6157
AT5G19390			Rho GTPase activation protein ...		Potri.009G069700 [exp]	37.28	0.6585
AT5G20590		TBL5	TRICHOME BIREFRINGENCE-LIKE 5 ...		Potri.018G133000 [exp]	37.34	0.6485
AT5G42470			unknown protein		Potri.005G240000 [exp]	40.62	0.5967
AT1G51630			O-fucosyltransferase family pr...		Potri.008G008300 [exp]	45.08	0.6215
AT4G32140			EamA-like transporter family (...		Potri.006G257000 [exp]	45.60	0.5936
AT4G39140			RING/U-box superfamily protein...		Potri.004G158400 [exp]	61.92	0.5839

Compare expression of checked genes

Potri.004G123300 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.