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 AT4G17720 355 / 1e-123 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G46870 318 / 3e-109 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G16840 263 / 3e-88 BPA1 binding partner of acd11 1 (.1.2.3) AT1G67950 241 / 2e-79 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3), RNA-binding (RRM/RBD/RNP motifs) family protein (.4) AT5G32450 213 / 3e-68 RNA binding (RRM/RBD/RNP motifs) family protein (.1) AT1G14340 142 / 3e-41 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G01210 114 / 2e-30 RNA-binding (RRM/RBD/RNP motifs) 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.001G138400 [exp] 469 / 4e-169 AT4G17720 365 / 2e-127 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.010G103600 [exp] 269 / 8e-90 AT1G67950 280 / 6e-94 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3), RNA-binding (RRM/RBD/RNP motifs) family protein (.4) Potri.019G037600 [exp] 204 / 4e-65 AT5G32450 400 / 2e-142 RNA binding (RRM/RBD/RNP motifs) family protein (.1) Potri.013G055100 [exp] 199 / 8e-63 AT5G32450 389 / 9e-138 RNA binding (RRM/RBD/RNP motifs) family protein (.1) Potri.017G081500 [exp] 145 / 1e-42 AT1G14340 239 / 6e-80 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.017G081400 [exp] 142 / 4e-41 AT1G14340 229 / 3e-75 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.015G005400 [exp] 45 / 3e-05 AT1G32790 415 / 5e-145 CTC-interacting domain 11 (.1.2) Potri.012G022000 [exp] 44 / 7e-05 AT1G32790 428 / 4e-150 CTC-interacting domain 11 (.1.2) Potri.012G145050 [exp] 40 / 0.0006 AT2G24350 107 / 4e-27 RNA binding (RRM/RBD/RNP motifs) family 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 Lus10030952 [exp] 395 / 2e-139 AT4G17720 382 / 7e-134 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10040095 [exp] 387 / 1e-136 AT4G17720 379 / 8e-133 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10011063 [exp] 323 / 4e-111 AT4G17720 333 / 2e-114 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10000676 [exp] 286 / 2e-96 AT4G17720 313 / 1e-106 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10025743 [exp] 273 / 1e-91 AT4G17720 295 / 4e-100 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10035919 [exp] 204 / 7e-65 AT4G17720 226 / 3e-73 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10010660 [exp] 192 / 2e-59 AT5G32450 352 / 3e-122 RNA binding (RRM/RBD/RNP motifs) family protein (.1) Lus10013651 [exp] 192 / 3e-58 AT5G32450 343 / 5e-117 RNA binding (RRM/RBD/RNP motifs) family protein (.1) Lus10034580 [exp] 149 / 5e-43 AT1G67950 177 / 4e-54 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3), RNA-binding (RRM/RBD/RNP motifs) family protein (.4) Lus10030491 [exp] 146 / 9e-43 AT1G14340 300 / 1e-103 RNA-binding (RRM/RBD/RNP motifs) family protein (.1)
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)
Representative CDS sequence Show only first row Show all	>Potri.003G095400.1 pacid=42786070 polypeptide=Potri.003G095400.1.p locus=Potri.003G095400 ID=Potri.003G095400.1.v4.1 annot-version=v4.1 ATGCAGCTCGCCATGTCGGTAAAAACAGTGAAAGTTAGTAATGTTTCTTTAGGAGCTTCTGAGCAAGACCTCAAGGAATTCTTTTCTTTTTCTGGTGATA TTGAATATGTTGAAATGAAAAGTGAGAATGAGCAATCTCAGATTGCATATGTATCCTTCAAAGATTCTCAAGGAGCAGACACTGCTGTTCTTCTTTCGGG AGCAACAATAGTTGACCTTCCTGTCACCGTAACTTTGGATCCAGATTACCAGCTGCCACCAGCTGCTTTAGCAGCACTTGTTGCAACAGAAAATAAAGCT CCGAGTGATGAATCAGCTCTTCATAAGGCAGAAGATGTGGTTACTGGCATGCTTGCTAAGGGCTTTATCTTGGGTAAAGATGCGATCAACAAAGCCAAGA GTTTTGATGAGAAGCACCAGTTGACTTCAACAGCCTCAGCTAAAGTTGCTTCTTTAGACAAAAAGATAGGTCTCACTGAGAAGATTAGTGCTAGCACCAC TGTTGTTGGTGACAAAGTTCGGGAAGTGGATCAGAAATTTCAGGTTTCTGAGAAAACTAAATTGGCACTTGCAGCTGCTGAGCAGAAAGTCAGTAGTGCA GGATCTGCCATAATGAGTAACAGGTACGTGTTTACTGGGGCTGCTTGGGTGACAGGCACATTCAATAAGGTTGCAAAGGCAGCTAAAGAAAAGGTAGGGA TGTCCGAAGAGGAACAAAAGAGGAAAATGGTGGATGACTATGCTCAGGTCCACCTATCTGAGTCCCCAAAAGCATCTGGTGAAAGTGAGCAGCAGCCTTC CAAGCCTCCACCTGCTCAAGGTTTGATTCTTTAA
AA sequence Show only first row Show all	>Potri.003G095400.1 pacid=42786070 polypeptide=Potri.003G095400.1.p locus=Potri.003G095400 ID=Potri.003G095400.1.v4.1 annot-version=v4.1 MQLAMSVKTVKVSNVSLGASEQDLKEFFSFSGDIEYVEMKSENEQSQIAYVSFKDSQGADTAVLLSGATIVDLPVTVTLDPDYQLPPAALAALVATENKA PSDESALHKAEDVVTGMLAKGFILGKDAINKAKSFDEKHQLTSTASAKVASLDKKIGLTEKISASTTVVGDKVREVDQKFQVSEKTKLALAAAEQKVSSA GSAIMSNRYVFTGAAWVTGTFNKVAKAAKEKVGMSEEEQKRKMVDDYAQVHLSESPKASGESEQQPSKPPPAQGLIL

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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
AT4G17720			RNA-binding (RRM/RBD/RNP motif...		Potri.003G095400 [exp]	0	1
AT3G10220		EMB2804	EMBRYO DEFECTIVE 2804, tubulin...		Potri.006G041400 [exp]	3.46	0.9329
AT5G58970		ATUCP2	uncoupling protein 2 (.1.2)		Potri.001G247800 [exp]	6.32	0.9310	Pt-UCP2.1
AT2G34590			Transketolase family protein (...		Potri.004G129800 [exp]	7.34	0.8932	Pt-PDH.2
AT1G12850			Phosphoglycerate mutase family...		Potri.002G236600 [exp]	7.74	0.8903
AT5G65020		ANNAT2	annexin 2 (.1.2)		Potri.005G075900 [exp]	8.77	0.9168	ANN1.3
AT2G33040		ATP3	gamma subunit of Mt ATP syntha...		Potri.012G066100 [exp]	10.00	0.9214	ATPC.1
AT5G09900		RPN5A, MSA, EMB...	REGULATORY PARTICLE NON-ATPASE...		Potri.007G076900 [exp]	12.96	0.9114
AT2G38910		CPK20	calcium-dependent protein kina...		Potri.016G065700 [exp]	15.00	0.9150	CPK20,CPK20.2
AT1G60780		HAP13	HAPLESS 13, Clathrin adaptor c...		Potri.010G044700 [exp]	18.00	0.9260
AT1G04430			S-adenosyl-L-methionine-depend...		Potri.002G036732 [exp]	18.30	0.9204

Compare expression of checked genes

Potri.003G095400 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.