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 AT4G25230 790 / 0 RIN2 RPM1 interacting protein 2 (.1.2) AT5G51450 752 / 0 RIN3 RPM1 interacting protein 3 (.1.2) AT1G65040 98 / 1e-21 AtHrd1B homolog of yeast Hrd1, RING/U-box superfamily protein (.1.2.3) AT3G16090 98 / 2e-21 AtHrd1A homolog of yeast Hrd1, RING/U-box superfamily protein (.1) AT2G04240 47 / 7e-06 XERICO RING/U-box superfamily protein (.1.2) AT5G20910 47 / 1e-05 AIP2 ABI3-interacting protein 2, RING/U-box superfamily protein (.1) AT4G12190 44 / 1e-05 RING/U-box superfamily protein (.1) AT4G12140 46 / 2e-05 RING/U-box superfamily protein (.1) AT3G02340 47 / 4e-05 RING/U-box superfamily protein (.1) AT3G56580 46 / 5e-05 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.001G124000 [exp] 948 / 0 AT4G25230 830 / 0.0 RPM1 interacting protein 2 (.1.2) Potri.013G088400 [exp] 103 / 4e-23 AT3G16090 613 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Potri.019G051500 [exp] 99 / 2e-21 AT3G16090 661 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Potri.011G150800 [exp] 50 / 1e-06 AT3G61460 69 / 1e-14 brassinosteroid-responsive RING-H2 (.1) Potri.006G217600 [exp] 50 / 2e-06 AT5G20910 360 / 2e-125 ABI3-interacting protein 2, RING/U-box superfamily protein (.1) Potri.001G450700 [exp] 47 / 5e-06 AT3G61460 71 / 2e-15 brassinosteroid-responsive RING-H2 (.1) Potri.017G049300 [exp] 49 / 6e-06 AT4G33565 166 / 6e-48 RING/U-box superfamily protein (.1) Potri.013G160000 [exp] 49 / 1e-05 AT5G01960 545 / 0.0 RING/U-box superfamily protein (.1) Potri.007G086300 [exp] 45 / 2e-05 AT1G15100 79 / 5e-19 RING-H2 finger A2A (.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 Lus10031728 [exp] 810 / 0 AT4G25230 843 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10031152 [exp] 796 / 0 AT4G25230 821 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10040359 [exp] 100 / 7e-22 AT3G16090 652 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Lus10023477 [exp] 100 / 8e-22 AT3G16090 650 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Lus10019686 [exp] 49 / 1e-06 AT1G72310 62 / 1e-11 RING/U-box superfamily protein (.1) Lus10034667 [exp] 50 / 2e-06 AT5G20910 391 / 2e-137 ABI3-interacting protein 2, RING/U-box superfamily protein (.1) Lus10017865 [exp] 50 / 2e-06 AT5G20910 389 / 2e-136 ABI3-interacting protein 2, RING/U-box superfamily protein (.1) Lus10016427 [exp] 49 / 2e-06 AT1G72310 59 / 4e-11 RING/U-box superfamily protein (.1) Lus10010179 [exp] 47 / 1e-05 AT3G19950 285 / 6e-96 RING/U-box superfamily protein (.1) Lus10011027 [exp] 48 / 2e-05 AT5G01960 619 / 0.0 RING/U-box superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0229 [poplar] [flax] RING PF13639 [poplar] [flax] zf-RING_2 Ring finger domain
Representative CDS sequence Show only first row Show all	>Potri.003G109400.6 pacid=42786764 polypeptide=Potri.003G109400.6.p locus=Potri.003G109400 ID=Potri.003G109400.6.v4.1 annot-version=v4.1 ATGGGTGCCAGTTATTTAGCGATTTCAGCAGTGTGTACGGTTTTGAGTTTTTCGGTTCTAACAGAAGTGTCGTTACATATATTGAGATCAGATGGTTTGA TTGTTGAGAATCTTACCAACTTTGAGAATGCCAACCATGCACTTGAGCTTCTGTTTGGTTCATATGCCACCATTGCATTGGTGGTGAATTTTGTATTCAA TGTATTTATACTACTCAATCTTTGTCTTAAGACTATTTTCTTTGGAGAGTTGTATCCTTCTGAAACTCAAAAGCTAGTGGAACGTCTCATTAATTATGCT ATTTACAAGGGAACACTTTTACCACTGGTTATTCCTCCAACAATTTCTCAAATAGGTCTCTGGTCAATTTGGCTGACTGGACTATGTTCTTTAAAGATGT TTCAAGCATTAGCTAGAGATCGACTTGAACGTTTGAATGCATCTCCTTCTGCAACGCCATGGACATATTTTCGTGCCTATTCAATGTTGTTGCTGGTCCT CTCTGTTGACCTTTTCTGGATACATATGTGTTATGTAATATACAGAAGCACAGGTTCATCCATGTTTCTGTTGTTGTTCTTTGAGCCTTTCAGTATTGCT TTTGAGACCATGCAAGCTATGCTGGTTCATGGATTTCAGTTGCTTGAGATTTGGCTCCATCATTCGACTGGGAATAGTGCAAATTGCCAAAGATTCAAGT TTTTTGATGCAATAAGAGCAGGTTCATTGTTGGAGTGGAAAGGCATTCTTATCCGGGATTTGGGCTTTTCGCTAGACATGGCAGCCTTGTTAATGGCACT TGGTCATTATGTGCATATTTGGTGGCTCCATGGTGTGGCACTTCATCTTGTGGATGTGGTCCTCTTTTTTAATATACGTGCTTTGCTAAGCGCTATCATA AAGCGTATAAAAGGATTTATCAAGCTTAGAATGGCTTTAGATGCCCTTCATGCAGCACTTTCTGATGCAACATCTGAAGAGCTACGAGCATATGATGATG AATGTGCTATCTGTAGGGAACCTATGGCCAAGGCCAAAAGGCTACTTTGCAGTCACCTTTTTCATCTTGCTTGCTTGAGATCTTGGTTGGATCAGGGATT AAATGAGATATACTCATGTCCCACTTGTCGGAAGCCACTTTTTTTAGGCAGGCCTGAAAATGAAGCAAATACTCATACTGGAGAAGTTCTGGCTGATGAG CAGCTTGCTCATCAAATAAATGAAGGATTTGATCGGCAAAACACTCCAGGTCGTGCACTGCTCGATGGGGCATTCCCTACCCAGATTCAGAACTCTACAG AGAGCAGTCCTTGGAGAAGTGCAGGGTTGGATTCAAGTTGGCTACCTAATTGGTCCGGCCAGGGTGCGGATGGGGCTGGTCCCTCAACAGCTATGAGATC AGTTGGATTGGGGGGGGTTCAGATGATGATGAGGCATCTAGCATCTGTGGGAGAAACTTATGCACAAACTGCTCTCGAGGATGCTGCCTGGAGCCTTTGG CCAATGAGTCCATCTCAGGCTACTCCATCTGGCTCTTCCACCCCTCCTGCTGCTGGTGGAAGACACCCTGGTGGTTTACATATGAGGACCGCATCACACT CCACAAATGATTTCATAGCAAACATACTTGCTATGGCTGAGACAGTGCGGGAGGTTTTGCCCCATGTTCCAGATGAGTTGATACTCCAGGACTTGCAGCG AACAAATTCTGCTACTGTTACTGTAAATAATCTTCTGCACATCCAGTTGTGA
AA sequence Show only first row Show all	>Potri.003G109400.6 pacid=42786764 polypeptide=Potri.003G109400.6.p locus=Potri.003G109400 ID=Potri.003G109400.6.v4.1 annot-version=v4.1 MGASYLAISAVCTVLSFSVLTEVSLHILRSDGLIVENLTNFENANHALELLFGSYATIALVVNFVFNVFILLNLCLKTIFFGELYPSETQKLVERLINYA IYKGTLLPLVIPPTISQIGLWSIWLTGLCSLKMFQALARDRLERLNASPSATPWTYFRAYSMLLLVLSVDLFWIHMCYVIYRSTGSSMFLLLFFEPFSIA FETMQAMLVHGFQLLEIWLHHSTGNSANCQRFKFFDAIRAGSLLEWKGILIRDLGFSLDMAALLMALGHYVHIWWLHGVALHLVDVVLFFNIRALLSAII KRIKGFIKLRMALDALHAALSDATSEELRAYDDECAICREPMAKAKRLLCSHLFHLACLRSWLDQGLNEIYSCPTCRKPLFLGRPENEANTHTGEVLADE QLAHQINEGFDRQNTPGRALLDGAFPTQIQNSTESSPWRSAGLDSSWLPNWSGQGADGAGPSTAMRSVGLGGVQMMMRHLASVGETYAQTALEDAAWSLW PMSPSQATPSGSSTPPAAGGRHPGGLHMRTASHSTNDFIANILAMAETVREVLPHVPDELILQDLQRTNSATVTVNNLLHIQL

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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
AT4G25230		RIN2	RPM1 interacting protein 2 (.1...		Potri.003G109400 [exp]	0	1
AT2G33170			Leucine-rich repeat receptor-l...		Potri.003G174900 [exp]	2.82	0.8103
AT2G29210			splicing factor PWI domain-con...		Potri.001G244600 [exp]	5.47	0.7705
AT2G44980		ASG3	ALTERED SEED GERMINATION 3, SN...		Potri.014G056700 [exp]	6.32	0.7501
AT1G08320	bZIP	TGA9, bZIP21	TGACG \(TGA\) motif-binding pr...		Potri.009G164300 [exp]	8.24	0.7736
AT1G30410		ATMRP13, ABCC12	ATP-binding cassette C12, mult...		Potri.004G034700 [exp]	12.36	0.7782	ATMRP12.4
AT1G03610			Protein of unknown function (D...		Potri.017G152601 [exp]	12.56	0.7879
AT1G43620		UGT80B1, TT15	TRANSPARENT TESTA 15, UDP-Glyc...		Potri.002G067100 [exp]	12.96	0.7647
AT1G66920			Protein kinase superfamily pro...		Potri.010G118300 [exp]	13.03	0.7421
AT4G40050			Protein of unknown function (D...		Potri.007G096800 [exp]	15.23	0.7586
AT1G76900	TUB	AtTLP1	tubby like protein 1 (.1.2)		Potri.002G068200 [exp]	17.14	0.7453

Compare expression of checked genes

Potri.003G109400 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.