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 AT5G14420 580 / 0 RGLG2 RING domain ligase2 (.1.2.3.4) AT3G01650 566 / 0 RGLG1 RING domain ligase1 (.1) AT1G67800 546 / 0 Copine (Calcium-dependent phospholipid-binding protein) family AT5G63970 437 / 2e-152 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) AT1G79380 429 / 2e-148 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) AT5G07300 97 / 4e-21 BON2 BONZAI 2, Calcium-dependent phospholipid-binding Copine family protein (.1) AT1G08860 94 / 2e-20 BON3 BONZAI 3, Calcium-dependent phospholipid-binding Copine family protein (.1) AT5G61900 94 / 3e-20 CPN1, BON1 COPINE 1, BONZAI 1, Calcium-dependent phospholipid-binding Copine family protein (.1.3) AT5G61910 94 / 6e-20 DCD (Development and Cell Death) domain protein (.1), DCD (Development and Cell Death) domain protein (.2), DCD (Development and Cell Death) domain protein (.3), DCD (Development and Cell Death) domain protein (.4) AT5G19080 50 / 2e-06 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.008G183600 [exp] 697 / 0 AT5G14420 571 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.001G342200 [exp] 607 / 0 AT5G14420 572 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.012G090100 [exp] 576 / 0 AT5G14420 575 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.006G002600 [exp] 518 / 0 AT5G14420 521 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.016G003000 [exp] 494 / 5e-174 AT5G14420 500 / 2e-176 RING domain ligase2 (.1.2.3.4) Potri.010G174800 [exp] 483 / 5e-169 AT1G79380 535 / 0.0 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) Potri.005G065700 [exp] 466 / 9e-163 AT5G63970 551 / 0.0 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) Potri.008G081300 [exp] 448 / 2e-156 AT1G79380 518 / 0.0 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) Potri.007G103700 [exp] 426 / 1e-147 AT5G63970 524 / 0.0 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10011405 [exp] 593 / 0 AT5G14420 566 / 0.0 RING domain ligase2 (.1.2.3.4) Lus10022294 [exp] 574 / 0 AT3G01650 608 / 0.0 RING domain ligase1 (.1) Lus10036879 [exp] 572 / 0 AT3G01650 555 / 0.0 RING domain ligase1 (.1) Lus10006463 [exp] 565 / 0 AT3G01650 547 / 0.0 RING domain ligase1 (.1) Lus10006231 [exp] 528 / 0 AT3G01650 514 / 0.0 RING domain ligase1 (.1) Lus10014587 [exp] 496 / 4e-175 AT3G01650 517 / 0.0 RING domain ligase1 (.1) Lus10032097 [exp] 493 / 7e-173 AT3G01650 514 / 0.0 RING domain ligase1 (.1) Lus10033043 [exp] 486 / 2e-170 AT3G01650 492 / 4e-172 RING domain ligase1 (.1) Lus10020885 [exp] 410 / 6e-141 AT5G63970 503 / 6e-179 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) Lus10000144 [exp] 393 / 8e-136 AT5G14420 384 / 2e-132 RING domain ligase2 (.1.2.3.4)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0128 [poplar] [flax] vWA-like PF07002 [poplar] [flax] Copine Copine CL0229 [poplar] [flax] RING PF13920 [poplar] [flax] zf-C3HC4_3 Zinc finger, C3HC4 type (RING finger)
Representative CDS sequence Show only first row Show all	>Potri.010G049600.3 pacid=42797396 polypeptide=Potri.010G049600.3.p locus=Potri.010G049600 ID=Potri.010G049600.3.v4.1 annot-version=v4.1 ATGGGAGGTAAAAGCTCAAAAGAGTCCAGTTGGAGAGATTATTCTTCTTATGGTTCAGCCAATTCTTCTTCTTCTTCTTCATCGAATCAGAATGGTTATC CTCCAGCATCACCATATCCATATCCATCTCCTCAACATAATTCCTACTACACATCTCAGAATCACCATGCGCCTGCTCCTAGTTCATCATCTTATCCTTA TGAATCACAAAGAACCCCCCAACATCCACAGAAGAGGTTGGATAGGAAATACTCGAGAATAGCTGACAATTACAAGACCCTGGATCAGGTGACTGCTGCT CTTGCTCAAGCTGGGTTAGAGTCTTCTAATCTCATTGTTGGAATTGACTTCACAAAAAGCAACGAGTGGACAGGTGCAAGATCATTCAATCGGCGAAGCT TACATCATATTGGAAATGGTCAAAATCCATATGAACAAGCAATATCAATTATTGGGAGGACTTTATCTGCATTTGATGAGGATAACTTAATTCCATGTTA TGGATTCGGAGATGCATCAACTCATGATCAGGATGTTTTCAGTTTCTTTCCGGATGAGAGATTCTGTAATGGATTCGAGGAGGTGCTGATGCAATACAAA GAAATTGTTCCCAACCTTCGGCTCGCAGGACCGACATCTTTTGCACCTGTTATTGAGATGGCCATAACTATTGTTGAGCAAAGTGGTGGGCAGTACCATG TTTTACTGATAATTGCTGATGGACAGGTGACGAGAAGTGTTGACACGCAGTCTGGCCAGCTCAGTCCACAAGAGAGAAGGACAATTGATGCAATTGTCAG AGCAAGCAAATACCCTCTATCGATCATCTTAGTTGGAGTTGGTGATGGACCTTGGGACATGATGAGGGAGTTCGATGATAACATCCCTGCTCGAGCCTTC GACAATTTCCAGTTTGTGAATTTTACAGAAATAATGTCCAAAAATGTGAGTGAATCAAGAAAAGAAACAGAATTTGCTCTTGCATCATTGATGGAAATAC CTTCTCAACATCAAGCAACTATTGAGCTTGGCTTATTAGGTCACCATAGTGGGAATGCGCCAGAGAGGGTTCCTTTGCCCCCACCACTTTACGGCCCGCA TTCTTCAAGCAGATCAAATGCTTCCCGCTCAAGCAGCTTCCAGCGGCGGGTACCTTCTTATTCTGGATATGATACACCAGTTAGTGGATACGAAACAGCA TCAGGGAAGGCTCCATCTCCTAGCTCTGTGTACGATAATCAGGTTTGCGTCATTTGTCTTACCAATCCAAAGGACATGGCCTTCGGCTGCGGGCACCAGA CTTGTTGTGACTGTGGAGAAGACCTCCAACTGTGCCCTATTTGTCGACGCCCAATACAGACCAGAATCAGGCTCTATTAA
AA sequence Show only first row Show all	>Potri.010G049600.3 pacid=42797396 polypeptide=Potri.010G049600.3.p locus=Potri.010G049600 ID=Potri.010G049600.3.v4.1 annot-version=v4.1 MGGKSSKESSWRDYSSYGSANSSSSSSSNQNGYPPASPYPYPSPQHNSYYTSQNHHAPAPSSSSYPYESQRTPQHPQKRLDRKYSRIADNYKTLDQVTAA LAQAGLESSNLIVGIDFTKSNEWTGARSFNRRSLHHIGNGQNPYEQAISIIGRTLSAFDEDNLIPCYGFGDASTHDQDVFSFFPDERFCNGFEEVLMQYK EIVPNLRLAGPTSFAPVIEMAITIVEQSGGQYHVLLIIADGQVTRSVDTQSGQLSPQERRTIDAIVRASKYPLSIILVGVGDGPWDMMREFDDNIPARAF DNFQFVNFTEIMSKNVSESRKETEFALASLMEIPSQHQATIELGLLGHHSGNAPERVPLPPPLYGPHSSSRSNASRSSSFQRRVPSYSGYDTPVSGYETA SGKAPSPSSVYDNQVCVICLTNPKDMAFGCGHQTCCDCGEDLQLCPICRRPIQTRIRLY

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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
AT5G14420		RGLG2	RING domain ligase2 (.1.2.3.4)		Potri.010G049600 [exp]	0	1
AT1G71400		AtRLP12	receptor like protein 12 (.1)		Potri.012G025700 [exp]	3.31	0.8679
AT5G36930			Disease resistance protein (TI...		Potri.004G230000 [exp]	4.58	0.8561
AT5G42050			DCD (Development and Cell Deat...		Potri.003G141900 [exp]	8.30	0.8244
AT5G36110		CYP716A1	"cytochrome P450, family 716, ...		Potri.013G106200 [exp]	13.41	0.8594
AT2G27580			A20/AN1-like zinc finger famil...		Potri.009G144100 [exp]	16.15	0.7825
AT4G12731			unknown protein		Potri.001G226750 [exp]	22.04	0.8419
AT3G07600			Heavy metal transport/detoxifi...		Potri.014G171300 [exp]	28.01	0.8498
AT1G30755			Protein of unknown function (D...		Potri.005G240300 [exp]	28.98	0.8446
AT5G10695			unknown protein		Potri.010G251000 [exp]	30.16	0.8233
AT5G37490			ARM repeat superfamily protein...		Potri.008G137700 [exp]	32.31	0.8196

Compare expression of checked genes

Potri.010G049600 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.