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 AT4G27470 205 / 5e-66 ATRMA3 RING membrane-anchor 3 (.1) AT4G03510 163 / 2e-49 ATRMA1, RMA1 RING membrane-anchor 1 (.1.2) AT4G28270 115 / 1e-31 ATRMA2 RING membrane-anchor 2 (.1) AT1G19310 112 / 6e-30 RING/U-box superfamily protein (.1) AT2G23780 107 / 4e-28 RING/U-box superfamily protein (.1) AT1G74990 102 / 4e-27 RING/U-box superfamily protein (.1) AT3G58030 99 / 1e-23 RING/U-box superfamily protein (.1.2.3.4) AT2G42030 96 / 9e-23 RING/U-box superfamily protein (.1) AT2G44410 84 / 1e-18 RING/U-box superfamily protein (.1) AT2G26350 52 / 2e-07 PEX10, ATPEX10 peroxin 10 (.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.011G120800 [exp] 407 / 2e-145 AT4G27470 167 / 7e-51 RING membrane-anchor 3 (.1) Potri.011G051800 [exp] 194 / 1e-61 AT4G27470 163 / 8e-50 RING membrane-anchor 3 (.1) Potri.004G042700 [exp] 189 / 8e-60 AT4G03510 157 / 1e-47 RING membrane-anchor 1 (.1.2) Potri.013G132300 [exp] 176 / 2e-54 AT4G03510 191 / 2e-60 RING membrane-anchor 1 (.1.2) Potri.019G100800 [exp] 173 / 4e-53 AT4G03510 187 / 1e-58 RING membrane-anchor 1 (.1.2) Potri.007G031600 [exp] 113 / 2e-30 AT2G23780 227 / 4e-75 RING/U-box superfamily protein (.1) Potri.002G133000 [exp] 113 / 2e-30 AT1G19310 244 / 5e-82 RING/U-box superfamily protein (.1) Potri.014G040400 [exp] 110 / 3e-29 AT1G19310 226 / 4e-75 RING/U-box superfamily protein (.1) Potri.005G127900 [exp] 107 / 4e-28 AT2G23780 234 / 3e-78 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 Lus10011184 [exp] 149 / 3e-44 AT4G03510 164 / 5e-50 RING membrane-anchor 1 (.1.2) Lus10018489 [exp] 149 / 8e-44 AT4G03510 159 / 7e-48 RING membrane-anchor 1 (.1.2) Lus10033697 [exp] 127 / 9e-36 AT4G03510 149 / 1e-44 RING membrane-anchor 1 (.1.2) Lus10018589 [exp] 118 / 2e-32 AT4G03510 154 / 9e-47 RING membrane-anchor 1 (.1.2) Lus10010791 [exp] 114 / 7e-31 AT1G19310 266 / 1e-90 RING/U-box superfamily protein (.1) Lus10016303 [exp] 114 / 2e-30 AT1G19310 268 / 2e-91 RING/U-box superfamily protein (.1) Lus10016796 [exp] 112 / 6e-30 AT2G23780 242 / 3e-81 RING/U-box superfamily protein (.1) Lus10022492 [exp] 112 / 6e-30 AT2G23780 241 / 1e-80 RING/U-box superfamily protein (.1) Lus10039821 [exp] 107 / 6e-28 AT4G03510 154 / 2e-46 RING membrane-anchor 1 (.1.2) Lus10004162 [exp] 98 / 3e-23 AT3G58030 367 / 3e-124 RING/U-box superfamily protein (.1.2.3.4)
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.001G401600.1 pacid=42788117 polypeptide=Potri.001G401600.1.p locus=Potri.001G401600 ID=Potri.001G401600.1.v4.1 annot-version=v4.1 ATGGAACAACACTTCTTTGATCATGAGGCACATTTTGAATCTGAGGAAGATGTTGGACTTAAGCAGAAACATAAATTGATCCCAGTCCCAACAGCAGTCT CAGACAATGACAGTGGCTATTTTGAATGCAACATATGCTTAGACTCTGCACATGACCCTGTTGTCACCCTATGTGGTCATCTATATTGCTGGCCATGCAT TTACAAATGGCTCCATGTTAAAACTTCCTCCCCTGATGCTAGTCAGCAGCAGCCGAGCTGCCCTGTCTGCAAGGCTGACATTTCTCCAAATTCATTGGTC CCTCTATATGGCCGGGGCCCATCTACATCTGAATCAAAATCCAAGAAAGACCCAGTGGATGTAGTCATACCCCGTAGGCCACTCCCTTCTGAGTTGAATA CAGTGAATGCTAATACTTCGCCACAAAATCGGCAACTTCATTCAAATTTTTTCAATCCACAGCCTCAGTCATTTCAACACCAACAATACTTCCATGATCC TCATGGAGGTTATGCAGCCTTGACCTCTTCAAACCTTGGGGGTACCGTGATGACAGGTTTTTTAAATCCAATGCTGGGGATGTTCAATGAGATGGTGTTC ACAAGGAATTTTGGGACGTCGATCACCAATATGTTTGCTCGCCCTTACACAAATCCTCTCATGGGAAGTAACAGTCCTAGGATGAGGAGGCAGGAAATGC AGCTTGACAAGTCTCTAAATAGAGTGTCCATCTTTTTTCTTTGCTGCATCATTTTGTGCCTCCTCTTATTTTGA
AA sequence Show only first row Show all	>Potri.001G401600.1 pacid=42788117 polypeptide=Potri.001G401600.1.p locus=Potri.001G401600 ID=Potri.001G401600.1.v4.1 annot-version=v4.1 MEQHFFDHEAHFESEEDVGLKQKHKLIPVPTAVSDNDSGYFECNICLDSAHDPVVTLCGHLYCWPCIYKWLHVKTSSPDASQQQPSCPVCKADISPNSLV PLYGRGPSTSESKSKKDPVDVVIPRRPLPSELNTVNANTSPQNRQLHSNFFNPQPQSFQHQQYFHDPHGGYAALTSSNLGGTVMTGFLNPMLGMFNEMVF TRNFGTSITNMFARPYTNPLMGSNSPRMRRQEMQLDKSLNRVSIFFLCCIILCLLLF

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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
AT4G27470		ATRMA3	RING membrane-anchor 3 (.1)		Potri.001G401600 [exp]	0	1
AT5G62520		SRO5	similar to RCD one 5 (.1.2)		Potri.015G076500 [exp]	2.00	0.8899
AT3G10040	Trihelix		sequence-specific DNA binding ...		Potri.016G096300 [exp]	3.87	0.8806
AT4G27470		ATRMA3	RING membrane-anchor 3 (.1)		Potri.011G120800 [exp]	6.78	0.8886
AT4G34131		UGT73B3	UDP-glucosyl transferase 73B3 ...		Potri.001G303600 [exp]	13.71	0.8715
AT2G27260			Late embryogenesis abundant (L...		Potri.009G019800 [exp]	19.97	0.7576
AT1G54050			HSP20-like chaperones superfam...		Potri.001G164200 [exp]	21.42	0.8409
AT2G38480			Uncharacterised protein family...		Potri.016G128200 [exp]	22.49	0.8058
					Potri.003G063150 [exp]	24.08	0.8330
AT3G11230			Yippee family putative zinc-bi...		Potri.016G115000 [exp]	26.32	0.6747
AT5G54830			DOMON domain-containing protei...		Potri.006G262300 [exp]	27.42	0.7272

Compare expression of checked genes

Potri.001G401600 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.