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 AT5G48655 77 / 6e-17 RING/U-box superfamily protein (.1.2.3) AT3G07200 76 / 7e-17 RING/U-box superfamily protein (.1.2) AT2G42030 49 / 2e-06 RING/U-box superfamily protein (.1) AT4G03510 47 / 5e-06 ATRMA1, RMA1 RING membrane-anchor 1 (.1.2) AT1G18660 47 / 7e-06 zinc finger (C3HC4-type RING finger) family protein (.1), zinc finger (C3HC4-type RING finger) family protein (.2), zinc finger (C3HC4-type RING finger) family protein (.3), zinc finger (C3HC4-type RING finger) family protein (.4) AT4G21070 47 / 9e-06 ATBRCA1 ARABIDOPSIS THALIANA BREAST CANCER SUSCEPTIBILITY1, breast cancer susceptibility1 (.1) AT3G58030 46 / 9e-06 RING/U-box superfamily protein (.1.2.3.4) AT2G32950 45 / 2e-05 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) AT3G16090 45 / 2e-05 AtHrd1A homolog of yeast Hrd1, RING/U-box superfamily protein (.1) AT1G65040 45 / 3e-05 AtHrd1B homolog of yeast Hrd1, RING/U-box superfamily protein (.1.2.3)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.001G082200 [exp] 285 / 2e-97 AT3G07200 86 / 2e-20 RING/U-box superfamily protein (.1.2) Potri.002G245500 [exp] 75 / 3e-16 AT5G48655 154 / 2e-47 RING/U-box superfamily protein (.1.2.3) Potri.014G191400 [exp] 74 / 5e-16 AT5G48655 158 / 8e-49 RING/U-box superfamily protein (.1.2.3) Potri.014G159300 [exp] 48 / 3e-06 AT2G32950 1091 / 0.0 FUSCA 1, EMBRYO DEFECTIVE 168, DEETIOLATED MUTANT 340, ARABIDOPSIS THALIANA CONSTITUTIVE PHOTOMORPHOGENIC 1, Transducin/WD40 repeat-like superfamily protein (.1) Potri.002G141300 [exp] 48 / 3e-06 AT2G44950 877 / 0.0 REDUCED DORMANCY 4, histone mono-ubiquitination 1 (.1) Potri.014G055800 [exp] 47 / 8e-06 AT2G44950 917 / 0.0 REDUCED DORMANCY 4, histone mono-ubiquitination 1 (.1) Potri.001G358100 [exp] 47 / 1e-05 AT4G21070 649 / 0.0 ARABIDOPSIS THALIANA BREAST CANCER SUSCEPTIBILITY1, breast cancer susceptibility1 (.1) Potri.004G002700 [exp] 45 / 2e-05 AT2G32950 832 / 0.0 FUSCA 1, EMBRYO DEFECTIVE 168, DEETIOLATED MUTANT 340, ARABIDOPSIS THALIANA CONSTITUTIVE PHOTOMORPHOGENIC 1, Transducin/WD40 repeat-like superfamily protein (.1) Potri.012G068100 [exp] 45 / 2e-05 AT1G18660 679 / 0.0 zinc finger (C3HC4-type RING finger) family protein (.1), zinc finger (C3HC4-type RING finger) family protein (.2), zinc finger (C3HC4-type RING finger) family protein (.3), zinc finger (C3HC4-type RING finger) family protein (.4)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10022774 [exp] 79 / 2e-17 AT5G48655 153 / 7e-47 RING/U-box superfamily protein (.1.2.3) Lus10022569 [exp] 72 / 2e-15 AT3G07200 81 / 3e-19 RING/U-box superfamily protein (.1.2) Lus10018271 [exp] 51 / 4e-08 AT3G07200 51 / 2e-08 RING/U-box superfamily protein (.1.2) Lus10040641 [exp] 48 / 8e-07 AT3G07200 46 / 1e-06 RING/U-box superfamily protein (.1.2) Lus10036151 [exp] 48 / 4e-06 AT4G21070 381 / 6e-118 ARABIDOPSIS THALIANA BREAST CANCER SUSCEPTIBILITY1, breast cancer susceptibility1 (.1) Lus10029990 [exp] 46 / 2e-05 AT2G32950 1088 / 0.0 FUSCA 1, EMBRYO DEFECTIVE 168, DEETIOLATED MUTANT 340, ARABIDOPSIS THALIANA CONSTITUTIVE PHOTOMORPHOGENIC 1, Transducin/WD40 repeat-like superfamily protein (.1) Lus10002584 [exp] 45 / 3e-05 AT1G61620 459 / 2e-164 phosphoinositide binding (.1) Lus10018609 [exp] 45 / 3e-05 AT5G44280 375 / 3e-124 ARABIDOPSIS THALIANA RING 1A, RING 1A (.1.2) Lus10018409 [exp] 45 / 3e-05 AT1G61620 459 / 3e-164 phosphoinositide binding (.1) Lus10040359 [exp] 45 / 3e-05 AT3G16090 652 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0229 [poplar] [flax] RING PF13923 [poplar] [flax] zf-C3HC4_2 Zinc finger, C3HC4 type (RING finger)
Representative CDS sequence Show only first row Show all	>Potri.003G148300.1 pacid=42786391 polypeptide=Potri.003G148300.1.p locus=Potri.003G148300 ID=Potri.003G148300.1.v4.1 annot-version=v4.1 ATGGATTTACTGGAGAATTTTGACAGCAACATGGTTTTTATGGAGAAAGCAGAAAACACTATGGATTTACTGGGGAGTGTGGATCTTCTGGTTGAAAATT TGTGGGAAGCCGAGAGAAGTTACTATCAGCACTTTGATCTCAACTTTCCAGTTCCTGTTGAGAACAATATACCTCCCTGTGGCCCGTGGTTTCCTGCCCA ACCACAGATTTTTCAAGCTGAAGCATATGGATTGACACGACAACGTGGAACTGCTCGAGATGTTGAGGTCATTGATGATGATATTGCTATAATCTCCCCC AACACATTTGATCAAGCCAGGAAGAAAGCTAGGAGAAATCCTGATGCAGAAGTAAGGGAAAATATAAATATGGCCAATCAGGTTCATGCTGCTGGGAGTG TGCCCCAACTCCCTGGATCATCCCAGGCTGTGCCACCATCCCAGTTCCCTGGATCGTCCCAGACTGTGCCACCGCCCCAACTTTCTGGATTGTCCCTGAC GGTGCCACCGCCTCATTTTTCAGGATTGTCCCAAACTGCACCGCCGCCACCAGCACCAATGTTTTGTTGCCCGATTTGTATGGACGAGATGAAAGAAGCA ACATCGACAAAATGTGGTCATGTTTTCTGCAAGAGTTGCATTGAAAAAGCACTGGCTGTCCAGAAGAAGTGCCCTACTTGCAGGATGAAATGTATAGCGA AATCCATCTTCAGGATCTTTCTTCCTGCATTTCTTTAA
AA sequence Show only first row Show all	>Potri.003G148300.1 pacid=42786391 polypeptide=Potri.003G148300.1.p locus=Potri.003G148300 ID=Potri.003G148300.1.v4.1 annot-version=v4.1 MDLLENFDSNMVFMEKAENTMDLLGSVDLLVENLWEAERSYYQHFDLNFPVPVENNIPPCGPWFPAQPQIFQAEAYGLTRQRGTARDVEVIDDDIAIISP NTFDQARKKARRNPDAEVRENINMANQVHAAGSVPQLPGSSQAVPPSQFPGSSQTVPPPQLSGLSLTVPPPHFSGLSQTAPPPPAPMFCCPICMDEMKEA TSTKCGHVFCKSCIEKALAVQKKCPTCRMKCIAKSIFRIFLPAFL

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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
AT5G48655			RING/U-box superfamily protein...		Potri.003G148300 [exp]	0	1
AT3G47940			DNAJ heat shock family protein...		Potri.015G066100 [exp]	1.73	0.9147
AT3G27320			alpha/beta-Hydrolases superfam...		Potri.008G180500 [exp]	2.23	0.9320
AT5G04410	NAC	NAC2, ANAC078	Arabidopsis NAC domain contain...		Potri.010G229900 [exp]	3.46	0.9161	Pt-NAC2.1,NAC049
AT1G75510			Transcription initiation facto...		Potri.005G233800 [exp]	4.47	0.9129
AT3G54540		ABCF4, ATGCN4	ATP-binding cassette F4, gener...		Potri.008G003300 [exp]	4.89	0.8952	GCN4.3
AT3G19950			RING/U-box superfamily protein...		Potri.015G028400 [exp]	6.32	0.8998
AT2G24360			Protein kinase superfamily pro...		Potri.006G279900 [exp]	7.14	0.8925
AT1G08970	CCAAT	NF-YC9, HAP5C	"nuclear factor Y, subunit C9"...		Potri.013G025000 [exp]	8.36	0.9018	Pt-HAP5.3
AT5G45130		ATRAB-F2A, RHA1...	ARABIDOPSIS RAB HOMOLOG F2A, R...		Potri.018G079300 [exp]	8.94	0.9092
AT3G12490		ATCYS6, ATCYSB	ARABIDOPSIS THALIANA PHYTOCYST...		Potri.009G022300 [exp]	11.09	0.8766

Compare expression of checked genes

Potri.003G148300 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.