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 AT1G60360 232 / 7e-74 RING/U-box superfamily protein (.1) AT3G56580 140 / 1e-38 RING/U-box superfamily protein (.1.2.3) AT2G40830 135 / 1e-36 RHC1A RING-H2 finger C1A (.1.2.3) AT3G19950 120 / 3e-31 RING/U-box superfamily protein (.1) AT1G55530 115 / 7e-29 RING/U-box superfamily protein (.1) AT3G10815 110 / 1e-28 RING/U-box superfamily protein (.1) AT5G56340 111 / 2e-27 ATCRT1 RING/U-box superfamily protein (.1) AT4G26400 110 / 2e-27 RING/U-box superfamily protein (.1.2) AT3G46620 110 / 3e-27 zinc finger (C3HC4-type RING finger) family protein (.1) AT3G13430 109 / 4e-27 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.006G032100 [exp] 147 / 3e-41 AT2G40830 327 / 1e-111 RING-H2 finger C1A (.1.2.3) Potri.016G029300 [exp] 145 / 8e-41 AT2G40830 317 / 9e-108 RING-H2 finger C1A (.1.2.3) Potri.012G126700 [exp] 125 / 6e-33 AT1G68180 138 / 4e-39 RING/U-box superfamily protein (.1) Potri.015G127600 [exp] 125 / 8e-33 AT1G68180 158 / 1e-46 RING/U-box superfamily protein (.1) Potri.009G034800 [exp] 120 / 5e-31 AT3G46620 236 / 8e-75 zinc finger (C3HC4-type RING finger) family protein (.1) Potri.012G036700 [exp] 120 / 7e-31 AT3G19950 273 / 5e-90 RING/U-box superfamily protein (.1) Potri.015G028400 [exp] 119 / 2e-30 AT3G19950 256 / 2e-83 RING/U-box superfamily protein (.1) Potri.005G090500 [exp] 117 / 3e-30 AT3G19950 279 / 4e-93 RING/U-box superfamily protein (.1) Potri.001G243300 [exp] 118 / 6e-30 AT3G46620 239 / 8e-76 zinc finger (C3HC4-type RING finger) 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 Lus10025612 [exp] 268 / 2e-87 AT1G60360 234 / 7e-75 RING/U-box superfamily protein (.1) Lus10028063 [exp] 258 / 1e-83 AT1G60360 224 / 9e-71 RING/U-box superfamily protein (.1) Lus10013235 [exp] 142 / 2e-39 AT2G40830 334 / 7e-115 RING-H2 finger C1A (.1.2.3) Lus10030755 [exp] 140 / 9e-39 AT2G40830 336 / 2e-115 RING-H2 finger C1A (.1.2.3) Lus10001582 [exp] 132 / 7e-37 AT2G40830 178 / 2e-55 RING-H2 finger C1A (.1.2.3) Lus10003698 [exp] 125 / 3e-33 AT2G40830 263 / 5e-87 RING-H2 finger C1A (.1.2.3) Lus10010179 [exp] 123 / 1e-32 AT3G19950 285 / 6e-96 RING/U-box superfamily protein (.1) Lus10040783 [exp] 117 / 2e-30 AT5G59550 228 / 1e-72 zinc finger (C3HC4-type RING finger) family protein (.1) Lus10040278 [exp] 114 / 1e-29 AT5G59550 224 / 2e-71 zinc finger (C3HC4-type RING finger) family protein (.1) Lus10004712 [exp] 116 / 3e-29 AT5G59550 294 / 6e-97 zinc finger (C3HC4-type RING finger) family 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 CL0167 [poplar] [flax] Zn_Beta_Ribbon PF14369 [poplar] [flax] zinc_ribbon_9 zinc-ribbon
Representative CDS sequence Show only first row Show all	>Potri.002G085800.1 pacid=42777248 polypeptide=Potri.002G085800.1.p locus=Potri.002G085800 ID=Potri.002G085800.1.v4.1 annot-version=v4.1 ATGTCTTTGAGCCCACCCAGAACAAGAACCAATGGCACCACAGGAAACTTCCAGCCATACTGGTGCTACCAGTGCCATCAAATGGTCAGGATTGCCACCA CGGACCCATCAGAAATCATCTGCCCTCGTTGTTCAGGGCAGTTCCTTTGTGAGATTGGAATTAATAGACCAATACTGGTTGTTGATTTCACTGCTTTTGA TCCTTCACCAGAAGCTCGCTTACTTGAAGCACTATCTCTCATGCTTGACCCACCAATCAGAAGATTCAATTATAGTCTCGATGAACCTGAACCTGAACCT CCTCGTCGGTCCTGGTTTCGTAGACGGAATCGACCTGACTTTTTTGATACTGAAATTCGTCCTCGAAGGCGTAGAAATCTGTCGCTAGAGCTTGATGGGA GAGATAATTGGGATTCATTGGACCCTGAAATCCGCCCACGGAGGTCTCGGGATTGGAGTCTTGATGGGAGAGGTATTTTGGAACACGAACCTGGGATCCA ATCCAGGCCAAGAACATGGATCCAATACAGGCCAAGGAATCCTCTTGGTGAACCAATTGAACCCCTTTCGCAATCTGAAAACCCAGTTCGTCCCCTGGTT GATCCCAGGGACTTTTTTGTGGGGTCAGGCCTAAACGAGTTGATTGAGCAATTGACACAAAATGACCGCCAAGGGCCACCACCAGCTCCAGAAATCGCCA TTGATACCATACCAACTGTAAAAATCGAGGCAAGTCATTTGGTGAATGACTCTCATTGTCCGGTTTGCATGGAAGAGTTTAAAGTTGGAGGGGAGGCAAG GGAGTTGCCTTGTAAGCACATATACCACAGTGAATGTATCGTGCCATGGTTAAGGTTACACAACTCCTGTCCAGTTTGTCGAAAGGAGTTGCCGGTTAAT AGTGAAAGTAGTGCTCAAGATGAAGATGAGTGTGAGGATGGAGGGGGTAGGAGGGGAAGGTGCTCGAGGTGGAGGAGGCAGTTGTCATCTTTATGGCCAT TTCGCGCTAGGTATGGGAGGATTAGTCCTCACGGAGAGGTTGCCGGTACCTCTCAAGGAGTTGATTCACGATGGTGTTCTTGCAATATTCTTTAG
AA sequence Show only first row Show all	>Potri.002G085800.1 pacid=42777248 polypeptide=Potri.002G085800.1.p locus=Potri.002G085800 ID=Potri.002G085800.1.v4.1 annot-version=v4.1 MSLSPPRTRTNGTTGNFQPYWCYQCHQMVRIATTDPSEIICPRCSGQFLCEIGINRPILVVDFTAFDPSPEARLLEALSLMLDPPIRRFNYSLDEPEPEP PRRSWFRRRNRPDFFDTEIRPRRRRNLSLELDGRDNWDSLDPEIRPRRSRDWSLDGRGILEHEPGIQSRPRTWIQYRPRNPLGEPIEPLSQSENPVRPLV DPRDFFVGSGLNELIEQLTQNDRQGPPPAPEIAIDTIPTVKIEASHLVNDSHCPVCMEEFKVGGEARELPCKHIYHSECIVPWLRLHNSCPVCRKELPVN SESSAQDEDECEDGGGRRGRCSRWRRQLSSLWPFRARYGRISPHGEVAGTSQGVDSRWCSCNIL

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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
AT1G60360			RING/U-box superfamily protein...		Potri.002G085800 [exp]	0	1
AT5G04890		RTM2	RESTRICTED TEV MOVEMENT 2, HSP...		Potri.010G245500 [exp]	5.91	0.9110
AT5G04890		RTM2	RESTRICTED TEV MOVEMENT 2, HSP...		Potri.010G245600 [exp]	8.83	0.9095
AT2G19480		NFA2, NFA02, NA...	NUCLEOSOME/CHROMATIN ASSEMBLY ...		Potri.003G036500 [exp]	10.72	0.8872
AT2G37500			arginine biosynthesis protein ...		Potri.015G112400 [exp]	12.76	0.7637
AT1G75260			oxidoreductases, acting on NAD...		Potri.002G034700 [exp]	14.42	0.8907
AT5G64620		ATC/VIF2, C/VIF...	cell wall / vacuolar inhibitor...		Potri.008G013400 [exp]	14.96	0.8785
AT1G76040		CPK29	calcium-dependent protein kina...		Potri.002G017000 [exp]	15.29	0.8918
AT2G19480		NFA2, NFA02, NA...	NUCLEOSOME/CHROMATIN ASSEMBLY ...		Potri.003G040700 [exp]	18.43	0.8632
AT5G04890		RTM2	RESTRICTED TEV MOVEMENT 2, HSP...		Potri.008G013800 [exp]	20.78	0.8760
AT5G42570			B-cell receptor-associated 31-...		Potri.011G089100 [exp]	20.92	0.8868

Compare expression of checked genes

Potri.002G085800 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.