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 AT3G21100 360 / 3e-116 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT5G12440 343 / 8e-109 C3HZnF CCCH-type zinc fingerfamily protein with RNA-binding domain (.1.2.3) AT3G51950 234 / 5e-69 C3HZnF Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) AT1G51520 201 / 6e-57 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT3G63450 179 / 6e-50 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) AT2G05160 144 / 1e-36 C3HZnF CCCH-type zinc fingerfamily protein with RNA-binding domain (.1) AT1G51530 87 / 4e-18 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT3G52980 103 / 2e-05 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1) AT1G17640 44 / 0.0002 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.001G255400 [exp] 960 / 0 AT3G21100 338 / 2e-107 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.009G050700 [exp] 390 / 2e-126 AT3G51950 362 / 4e-117 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Potri.001G255532 [exp] 388 / 5e-126 AT3G51950 347 / 8e-112 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Potri.003G204300 [exp] 373 / 8e-120 AT3G51950 342 / 1e-109 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Potri.001G020300 [exp] 315 / 2e-97 AT3G51950 330 / 1e-104 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Potri.001G276300 [exp] 262 / 2e-83 AT5G12440 80 / 3e-17 CCCH-type zinc fingerfamily protein with RNA-binding domain (.1.2.3) Potri.002G221100 [exp] 149 / 3e-38 AT2G05160 469 / 1e-160 CCCH-type zinc fingerfamily protein with RNA-binding domain (.1) Potri.014G165500 [exp] 147 / 2e-37 AT2G05160 513 / 8e-178 CCCH-type zinc fingerfamily protein with RNA-binding domain (.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 Lus10005023 [exp] 435 / 1e-145 AT3G21100 380 / 4e-125 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10019042 [exp] 427 / 6e-142 AT3G21100 368 / 6e-120 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10014915 [exp] 350 / 1e-112 AT3G21100 384 / 7e-127 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10027350 [exp] 325 / 1e-103 AT3G21100 327 / 4e-105 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10019044 [exp] 300 / 9e-93 AT3G51950 341 / 4e-110 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Lus10039575 [exp] 281 / 3e-86 AT3G51950 427 / 3e-144 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Lus10005319 [exp] 276 / 6e-84 AT3G51950 420 / 2e-141 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Lus10027351 [exp] 216 / 2e-65 AT3G21100 235 / 6e-77 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10009964 [exp] 184 / 5e-52 AT3G51950 215 / 3e-64 Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.1), Zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein (.2) Lus10006379 [exp] 152 / 2e-39 AT2G05160 467 / 1e-160 CCCH-type zinc fingerfamily protein with RNA-binding domain (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0537 [poplar] [flax] CCCH_zf PF00642 [poplar] [flax] zf-CCCH Zinc finger C-x8-C-x5-C-x3-H type (and similar)
Representative CDS sequence Show only first row Show all	>Potri.009G050600.1 pacid=42771331 polypeptide=Potri.009G050600.1.p locus=Potri.009G050600 ID=Potri.009G050600.1.v4.1 annot-version=v4.1 ATGGATACTCATGAGATAACTAACATACTGCTAACTAAACTCAAGAGTTTAGATCCAGAAAACGCTGCTAGAATTATGGGTTTTATTCTCATACAAGTCC CTTCCGAAAAAGATTTGTTACGTTTAGCCTTTGGCCCTGAAACCCTTTTGCAAAATGTAGTCTTTAAGGCCAAAATCCACTTTGGACTCTCTACAAACAC GTTTTCTACACCTTCTACACCATCTTCTCCGTTGCCTCTCAATCCCATAGCAAGGCCTTGTAATAGCACTAACCCCTTTTCACTATCGTCTCCAAGAGTC ACAAATAATGATTCTTTCCTTGATTTTGGAAAAAACCCGCCTCCAAATCCCTGGCCTGTTCATGGGTTGCCAAATAATAGTAACAGTAACACTTCAATTA GCCCAAAGTCCAGTCCTTTTTTGTCCTATGATAATATACGTTCTGGGTCTGTTTTAGTGCCACCATTCTCGAGGAATGGTGGTAATGACTGTGGTGATTG CAGTAATAATAGTGTTGACTTCCCTGATGAGTATCAATTAGATGATTATCTTTCGTTTCTTGATGACCCCTCTTCAAAAAATGAGGGCTTTATGGACCAA AGGGTTCAATTGGGTGGTTATCCGGTTGATAATGGAGATAGCCATTTGCATAGAAGGAGATTTTCAGAGAGTGATGCGTGTTTTGGTGCTGAAGATGGGG GGTTTGGTCTTGGGTATAAGCCTTGTCTGTATTTTGCTAGAGGGTTTTGCAAGAATGGAGAAAGTTGCAAGTTTGTTCATGGTGGTGAAAATATGGCTGA GGTTAATGGTGGTGGTGTTCTTGTGGGTTCACCAAGGGAAATGGAGGAACTTTATTTGCAGCAGCAAGAGGAGTTGATGAGAATGAAGGCTGCACAGCAG CAGCAGCAGCAAAGGATGGCTTATAACAAGTACATGAATTTTCTGTTGCAGCAACAGAATAAAACCGATAGATTGGGGGCAGCAGCAGCAATGATGGGTG ACGAATTTTACAATTTCAGTCGGCTTCGTGGTGGAAGGAATGGCTTTTTTGCAATGGGAATGGCTGAAAAGGCAAATTCAGCATCCAGACAGATATACTT GACATTCCCGGCTGACAGCTCTTTCAAAGATGAAGATGTTTCGAATTATTTCTGTTCTTTTGGACCAGTTCAAGATGTTAGGATTCCATACCAGCAGAAG CGGATGTTTGGATTTGTTACATTTGTCCACCCAGAGACTGTGAAGGAAATATTGGCAAAGGGAAATCCTCATTATATCTGCGAGTCACGTGTGCTTGTCA AGCCATACAAAGAGAAAGGAAAAGTAGCAAACAAGATGCAACAGTTACTTGAGAGGGGGAATTTTTCACCTACTTCAAGCCCTTCAGGTTTTGATCCTAG AGAGCTACGTGATATTCACCTTGGAGCAAGAATGCTTTACAATACACCTGAAATTATGCTGAGAAGGAAATTGGAGGAGCAGGCAGAGCTGCAGCAAGCT ATTGAACTCCAGGGAAGAAGGTTAATTAATCTGCAACTTCCAGACTTGAGGGGAGATTATGTACATCGTCACCAGCGTAGTCTGTCTGTTGGTGCTCCCA TTTCCCTGCACACTCATCATTCTCCCATCAATCAAACTGACATTCTTACCTCCAATGGCAAGAACGAGATCACATTAGAAGACGAAGGGAATTTATCAGG TGCCACTAAATCTACTTATATTGCTGCCATTGAACAGAATCTTCAGGATGAATTGAACGCAGCTTACATTCAGAACAATGACAATGTTAATTGCAAGGTG GAGAGCTTCACTGAAAGCCATGGAAGCAACGTGGAACCCGATAACCTCACAAAATCATCTGAGAATCAGCACTCTGACTTGTTCCCTTATGCCAAAGCTA AAGAAAGCAATGAGTTATCTGTCTCTTCATGGTCTGAAAATGATGCATCAGTGCCCACCACTTCTACTAGTGACGAGGCTTCTTATTGA
AA sequence Show only first row Show all	>Potri.009G050600.1 pacid=42771331 polypeptide=Potri.009G050600.1.p locus=Potri.009G050600 ID=Potri.009G050600.1.v4.1 annot-version=v4.1 MDTHEITNILLTKLKSLDPENAARIMGFILIQVPSEKDLLRLAFGPETLLQNVVFKAKIHFGLSTNTFSTPSTPSSPLPLNPIARPCNSTNPFSLSSPRV TNNDSFLDFGKNPPPNPWPVHGLPNNSNSNTSISPKSSPFLSYDNIRSGSVLVPPFSRNGGNDCGDCSNNSVDFPDEYQLDDYLSFLDDPSSKNEGFMDQ RVQLGGYPVDNGDSHLHRRRFSESDACFGAEDGGFGLGYKPCLYFARGFCKNGESCKFVHGGENMAEVNGGGVLVGSPREMEELYLQQQEELMRMKAAQQ QQQQRMAYNKYMNFLLQQQNKTDRLGAAAAMMGDEFYNFSRLRGGRNGFFAMGMAEKANSASRQIYLTFPADSSFKDEDVSNYFCSFGPVQDVRIPYQQK RMFGFVTFVHPETVKEILAKGNPHYICESRVLVKPYKEKGKVANKMQQLLERGNFSPTSSPSGFDPRELRDIHLGARMLYNTPEIMLRRKLEEQAELQQA IELQGRRLINLQLPDLRGDYVHRHQRSLSVGAPISLHTHHSPINQTDILTSNGKNEITLEDEGNLSGATKSTYIAAIEQNLQDELNAAYIQNNDNVNCKV ESFTESHGSNVEPDNLTKSSENQHSDLFPYAKAKESNELSVSSWSENDASVPTTSTSDEASY

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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
AT3G21100			RNA-binding (RRM/RBD/RNP motif...		Potri.009G050600 [exp]	0	1
AT5G07810			SNF2 domain-containing protein...		Potri.012G067000 [exp]	2.64	0.7682	CHR919
AT2G46920		POL	poltergeist, Protein phosphata...		Potri.002G185000 [exp]	9.79	0.7244	POL.2
AT1G09460			Carbohydrate-binding X8 domain...		Potri.013G003500 [exp]	11.40	0.7501
AT4G29000	CPP		Tesmin/TSO1-like CXC domain-co...		Potri.006G160400 [exp]	11.61	0.7208
AT5G58450			Tetratricopeptide repeat (TPR)...		Potri.013G152800 [exp]	15.00	0.7120
AT5G63920		TOP3A, AtTOP3al...	topoisomerase 3alpha (.1)		Potri.005G067100 [exp]	17.66	0.6956
AT3G59780			Rhodanese/Cell cycle control p...		Potri.014G182410 [exp]	20.44	0.6965
AT5G49110			unknown protein		Potri.010G011800 [exp]	22.09	0.7364
AT3G13750		BGAL1	beta-galactosidase 1, beta gal...		Potri.001G200400 [exp]	22.78	0.7398	BGAL1.1
AT4G38180	FAR1_related	FRS5	FAR1-related sequence 5 (.1)		Potri.015G139300 [exp]	26.45	0.6976

Compare expression of checked genes

Potri.009G050600 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.