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 AT3G16090 614 / 0 AtHrd1A homolog of yeast Hrd1, RING/U-box superfamily protein (.1) AT1G65040 603 / 0 AtHrd1B homolog of yeast Hrd1, RING/U-box superfamily protein (.1.2.3) AT4G25230 102 / 1e-22 RIN2 RPM1 interacting protein 2 (.1.2) AT5G51450 86 / 2e-17 RIN3 RPM1 interacting protein 3 (.1.2) AT5G01960 72 / 3e-13 RING/U-box superfamily protein (.1) AT2G44581 62 / 4e-11 RING/U-box superfamily protein (.1) AT2G44578 61 / 9e-11 RING/U-box superfamily protein (.1) AT3G30460 53 / 4e-08 RING/U-box superfamily protein (.1) AT1G73760 54 / 2e-07 RING/U-box superfamily protein (.1) AT5G15820 54 / 2e-07 RING/U-box superfamily 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.019G051500 [exp] 905 / 0 AT3G16090 661 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Potri.001G124000 [exp] 102 / 1e-22 AT4G25230 830 / 0.0 RPM1 interacting protein 2 (.1.2) Potri.003G109400 [exp] 98 / 2e-21 AT4G25230 790 / 0.0 RPM1 interacting protein 2 (.1.2) Potri.016G141200 [exp] 67 / 1e-11 AT5G01960 546 / 0.0 RING/U-box superfamily protein (.1) Potri.006G111800 [exp] 66 / 4e-11 AT5G01960 572 / 0.0 RING/U-box superfamily protein (.1) Potri.013G160000 [exp] 61 / 1e-09 AT5G01960 545 / 0.0 RING/U-box superfamily protein (.1) Potri.003G142600 [exp] 56 / 2e-08 AT4G24015 144 / 3e-43 RING/U-box superfamily protein (.1) Potri.018G098100 [exp] 53 / 8e-08 AT2G18670 91 / 2e-23 RING/U-box superfamily protein (.1) Potri.018G098000 [exp] 52 / 1e-07 AT2G18670 87 / 6e-22 RING/U-box superfamily 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 Lus10040359 [exp] 707 / 0 AT3G16090 652 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Lus10023477 [exp] 694 / 0 AT3G16090 650 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Lus10031728 [exp] 94 / 9e-20 AT4G25230 843 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10031152 [exp] 92 / 2e-19 AT4G25230 821 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10000996 [exp] 63 / 3e-10 AT5G01960 626 / 0.0 RING/U-box superfamily protein (.1) Lus10011027 [exp] 62 / 8e-10 AT5G01960 619 / 0.0 RING/U-box superfamily protein (.1) Lus10013497 [exp] 54 / 7e-08 AT1G73760 199 / 1e-62 RING/U-box superfamily protein (.1) Lus10010179 [exp] 54 / 9e-08 AT3G19950 285 / 6e-96 RING/U-box superfamily protein (.1) Lus10034667 [exp] 54 / 1e-07 AT5G20910 391 / 2e-137 ABI3-interacting protein 2, RING/U-box superfamily protein (.1) Lus10015046 [exp] 54 / 1e-07 AT5G02750 206 / 5e-65 SHOOT GRAVITROPISM 9, 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.013G088400.3 pacid=42811856 polypeptide=Potri.013G088400.3.p locus=Potri.013G088400 ID=Potri.013G088400.3.v4.1 annot-version=v4.1 ATGATGCGGCTGCGCACATACGCGGGCGTTAGTTCGGTGGCGACTCTAGCTATAATCTATCACGCATTTAACAGTAGAGGGCAGTTTTATCCAGCTATGG TTTACTTATCTACCTCTAAGATCAGTTTAGTGCTTCTTCTCAACATGGGTTTAGTAATTATGTGCATTTTGTGGCAATTAACTAAGCGGCTATTCCTTGG TTCCCTCCGCGAAGCTGAAGTTGAGAGGTTGAATGAGCAGTCTTGGAGAGAGCTCATGGAAATTCTCTTTGCCATCACTATTTTTAGGCAGGATTTCTCC GTCACCTTTCTTGCCATGGTCACCGCTTTGTTGTTAATCAAGGCTTTGCATTGGTTGGCTCAAAAGAGGGTTGAGTATATCGAGACAACACCATCTGTTA ACTGCTTATCTCATGTTCGGATTGTTTCGTTTCTGGGGTTTCTTCTTCTCGTAGACAGCCTCTTCTTGTACTCTTCTGTCAAGCATTTGCTTGAAACCAG GCAGGCTTCTGTGTCTCTCTTCTTCTCGTTCGAGTACATGATACTGGCGACAACAACTGTGTCAACATTTGTAAAATATGTTTTCTATGTGAGTGACATG CTTATGGAAGGACAATGGGAAAGAAAGCCTGTCTACACCTTCTACATGGAACTTGTTCGGGACTTGCTGCACTTGTCTATGTATTTGTGCTTCTTCCTTG TCATTTTCATGAACTATGGTGTGCCTTTGCACTTAATACGGGAGCTTTATGAGACATTCAGGAATTTCAAAATTCGTGTTGCTGACTACATTCGTTATCG GAAGATCACTTCCAATATGAATGATCGGTTTCCAGATGCAACAGCCGAAGAGCTTAATGCAAGTGATGCAACCTGTATTATTTGTCGTGAAGAGATGACC ACAGCCAAAAAGTTAATCTGTGGACATCTTTTTCATGTTCATTGTCTGCGTTCGTGGCTGGAGCGACAACATACTTGCCCTACATGCAGAGCCCTAGTTG TACCACCTGAAAATGGTGCAAGTACAGCTGGAGGACAACATGGAGCACAGCCAGATACTCATCAACAGGGTAATTATGGAATAGGCACTGCAACTACTGC AGCTCAGATTTCAGCTGGTGGTGTGGCTGATGATGGTGTGGCTGATGATAGTTTGATCCAGAATCAGGTCAGACTCCAAGCTGCTGCTGCTGCTGCTTCT TTATACGAGAAGTCATTCACATATCCTTCAGCAAACACTCCAGTATGGTCTCCTGGATATGCCTTAATACCTCAAGTTCAAAGACCTTTGGCTGACAGGA CTACTGTGGAGTCAGGTGGAGAGCAAGGTTTCATTGGACAACAACACCTGCAGTTTTCTATCCATGGTGGGCCATCAAACTTGTCCTTTCCTCAACTTCC CCACTGTGTCTTTATCCCCTTTCAGGCACCTAGTGCTAGTGTGTATCAGGGAGAGAGAGCGGGCAGTACACCAATCTCTGAGTTGGAAGCTCAGAAAAAT TTTCTTCAACACCAGATTGAGGTCCTGCAAAGTCAGCTCCAACTACTACAGAAGCCAGAGACTGAGGAAAGCACGCTTTTGGCACCCACAACATTGCCAG ACAATAAAGACAAGACTGCTGGATCATCATCCTCTGTATCAGAGTCTGGTCGTCATGCAGAGATTGGAGAGACTGATGCTCTCCTGATGCATAATCCTCA AGTAACTACTGCATTATGA
AA sequence Show only first row Show all	>Potri.013G088400.3 pacid=42811856 polypeptide=Potri.013G088400.3.p locus=Potri.013G088400 ID=Potri.013G088400.3.v4.1 annot-version=v4.1 MMRLRTYAGVSSVATLAIIYHAFNSRGQFYPAMVYLSTSKISLVLLLNMGLVIMCILWQLTKRLFLGSLREAEVERLNEQSWRELMEILFAITIFRQDFS VTFLAMVTALLLIKALHWLAQKRVEYIETTPSVNCLSHVRIVSFLGFLLLVDSLFLYSSVKHLLETRQASVSLFFSFEYMILATTTVSTFVKYVFYVSDM LMEGQWERKPVYTFYMELVRDLLHLSMYLCFFLVIFMNYGVPLHLIRELYETFRNFKIRVADYIRYRKITSNMNDRFPDATAEELNASDATCIICREEMT TAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVPPENGASTAGGQHGAQPDTHQQGNYGIGTATTAAQISAGGVADDGVADDSLIQNQVRLQAAAAAAS LYEKSFTYPSANTPVWSPGYALIPQVQRPLADRTTVESGGEQGFIGQQHLQFSIHGGPSNLSFPQLPHCVFIPFQAPSASVYQGERAGSTPISELEAQKN FLQHQIEVLQSQLQLLQKPETEESTLLAPTTLPDNKDKTAGSSSSVSESGRHAEIGETDALLMHNPQVTTAL

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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
AT3G16090		AtHrd1A	homolog of yeast Hrd1, RING/U-...		Potri.013G088400 [exp]	0	1
AT5G07610			F-box family protein (.1)		Potri.008G016300 [exp]	1.41	0.9243
					Potri.003G027318 [exp]	5.91	0.8667
AT2G25760			Protein kinase family protein ...		Potri.006G236600 [exp]	6.00	0.8384
AT1G10130		ATECA3, ECA3	ARABIDOPSIS THALIANA ER-TYPE C...		Potri.002G117400 [exp]	6.48	0.8634
					Potri.003G027116 [exp]	7.34	0.8643
					Potri.001G298266 [exp]	9.94	0.8620
AT1G29370			Kinase-related protein of unkn...		Potri.005G202851 [exp]	10.48	0.8617
					Potri.001G298233 [exp]	12.84	0.8554
AT5G04260		WCRKC2	WCRKC thioredoxin 2 (.1)		Potri.010G225701 [exp]	14.49	0.8295
AT2G39140		PDE328, SVR1	SUPPRESSOR OF VARIEGATION 1, P...		Potri.010G226901 [exp]	15.00	0.7984

Compare expression of checked genes

Potri.013G088400 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.