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 572 / 0 RGLG2 RING domain ligase2 (.1.2.3.4) AT3G01650 569 / 0 RGLG1 RING domain ligase1 (.1) AT1G67800 526 / 0 Copine (Calcium-dependent phospholipid-binding protein) family AT5G63970 425 / 8e-148 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) AT1G79380 421 / 2e-145 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) AT5G07300 101 / 9e-23 BON2 BONZAI 2, Calcium-dependent phospholipid-binding Copine family protein (.1) AT5G61900 97 / 3e-21 CPN1, BON1 COPINE 1, BONZAI 1, Calcium-dependent phospholipid-binding Copine family protein (.1.3) AT5G61910 97 / 5e-21 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) AT1G08860 94 / 2e-20 BON3 BONZAI 3, Calcium-dependent phospholipid-binding Copine family protein (.1) AT2G40770 48 / 1e-05 zinc ion binding;DNA binding;helicases;ATP binding;nucleic acid binding (.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.010G049600 [exp] 592 / 0 AT5G14420 580 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.008G183600 [exp] 573 / 0 AT5G14420 571 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.012G090100 [exp] 570 / 0 AT5G14420 575 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.006G002600 [exp] 523 / 0 AT5G14420 521 / 0.0 RING domain ligase2 (.1.2.3.4) Potri.016G003000 [exp] 503 / 1e-177 AT5G14420 500 / 2e-176 RING domain ligase2 (.1.2.3.4) Potri.010G174800 [exp] 469 / 5e-164 AT1G79380 535 / 0.0 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) Potri.005G065700 [exp] 451 / 3e-157 AT5G63970 551 / 0.0 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) Potri.008G081300 [exp] 446 / 1e-155 AT1G79380 518 / 0.0 Ca(2)-dependent phospholipid-binding protein (Copine) family (.1) Potri.007G103700 [exp] 424 / 3e-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 Lus10022294 [exp] 617 / 0 AT3G01650 608 / 0.0 RING domain ligase1 (.1) Lus10011405 [exp] 553 / 0 AT5G14420 566 / 0.0 RING domain ligase2 (.1.2.3.4) Lus10014587 [exp] 541 / 0 AT3G01650 517 / 0.0 RING domain ligase1 (.1) Lus10032097 [exp] 540 / 0 AT3G01650 514 / 0.0 RING domain ligase1 (.1) Lus10036879 [exp] 538 / 0 AT3G01650 555 / 0.0 RING domain ligase1 (.1) Lus10006463 [exp] 532 / 0 AT3G01650 547 / 0.0 RING domain ligase1 (.1) Lus10006231 [exp] 498 / 5e-176 AT3G01650 514 / 0.0 RING domain ligase1 (.1) Lus10033043 [exp] 484 / 8e-170 AT3G01650 492 / 4e-172 RING domain ligase1 (.1) Lus10020885 [exp] 406 / 3e-139 AT5G63970 503 / 6e-179 Copine (Calcium-dependent phospholipid-binding protein) family (.1), Copine (Calcium-dependent phospholipid-binding protein) family (.2) Lus10000144 [exp] 389 / 2e-134 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.001G342200.3 pacid=42790056 polypeptide=Potri.001G342200.3.p locus=Potri.001G342200 ID=Potri.001G342200.3.v4.1 annot-version=v4.1 ATGGGGGGCAAAAGTTCAAGGCAAGCCAATTGGAGTTCGAATCCATCTTCATGGGATGCCTATCAACAACCATCATATAGTCAAGAAAGTTTTAATCATT CACCACCACCACCACCACCACCACAGCAACCTTATGCATCACAACAATCATTTGGGTCGCAGCAGCATTATTCTTCCTCTCAAGACTACGGGGGTGGCGG CGACAGAAGAAGGCTCGACAGGAAGTATTCAAGGATTGCAGATGATTACAAATCATTACATCAGGTGACCGAGGCTCTTGCACGTGCTGGTCTTGAATCT TCCAATCTCATTGTTGGTATTGATTTCACAAAGAGCAATGAGTGGACAGGTGCCAGGTCATATAACAGACGATGCTTGCATCATATCGGCGATGGTTTTA ATCCATATGAACAAGCAATATCCATTATTGGGAAAACGCTGGCTGCCTTTGATGAGGATAACTTGATTCCCTGTTTTGGATTTGGGGATGCATCAACACA TGATCAGGACGTCTTCAGTTTCTATCCAGATGAGAGGTTTTGCAATGGATTTGAGGAAGTTTTGAGTCGGTATAGGGAAATCGTGCCCAATCTACGACTT GCAGGACCTACATCATTTGCACCAATCATTGAAATGGCAATGACCATTGTTGAGCAGAGCGCTGGCCAGTACCATGTACTATTGATAATTGCAGATGGAC AGGTTACTAGAAGTGTTGATACCGAGCATGGCCAGCTAAGTCCACAGGAACAGAAGACCGTCGAAGCCATTGTACAAGCAAGCAAGCTTCCCTTATCTAT TATATTAGTTGGGGTGGGAGATGGGCCCTGGGATATGATGAGGGAGTTTGATGATAACATTCCTGCTCGAGATTTTGATAATTTCCAGTTTGTGAATTTC ACAGAAATAATGTCAAAGAATGTGGACACATCAAGAAAGGAGACAGAATTTGCGCTTTCTGCTCTGATGGAAATTCCTTCTCAGTACAAGGCAACTATAG AGCTTAGTATATTGGGTCAGAGCAAGGGAATTGTTTCTGAGAGAGTTGCCCTGCCTCCACCTTTGTATGGTGCAGCATCTTTCAGCAGCTCTAAGCCTTC TCGTCCTGCCAGTTTTAAGCCAAGTGTTCCTTCTTATCAAAGAGACAGCCAACCTTTCAGCTCAGCTCCACCTGCTACGTGTTCAACTTATGATAATCAG CTTTGCCCTATTTGCCTCAGTAATTCGAAGGACATGGCCTTTGGTTGTGGGCATCAGACATGTTGCGAATGTGGAGAAACCCTTCAGTTATGTCCAATCT GTCGAAGTACGATCGAAACAAGAATAAAGCTCTTTTAA
AA sequence Show only first row Show all	>Potri.001G342200.3 pacid=42790056 polypeptide=Potri.001G342200.3.p locus=Potri.001G342200 ID=Potri.001G342200.3.v4.1 annot-version=v4.1 MGGKSSRQANWSSNPSSWDAYQQPSYSQESFNHSPPPPPPPQQPYASQQSFGSQQHYSSSQDYGGGGDRRRLDRKYSRIADDYKSLHQVTEALARAGLES SNLIVGIDFTKSNEWTGARSYNRRCLHHIGDGFNPYEQAISIIGKTLAAFDEDNLIPCFGFGDASTHDQDVFSFYPDERFCNGFEEVLSRYREIVPNLRL AGPTSFAPIIEMAMTIVEQSAGQYHVLLIIADGQVTRSVDTEHGQLSPQEQKTVEAIVQASKLPLSIILVGVGDGPWDMMREFDDNIPARDFDNFQFVNF TEIMSKNVDTSRKETEFALSALMEIPSQYKATIELSILGQSKGIVSERVALPPPLYGAASFSSSKPSRPASFKPSVPSYQRDSQPFSSAPPATCSTYDNQ LCPICLSNSKDMAFGCGHQTCCECGETLQLCPICRSTIETRIKLF

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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.001G342200 [exp]	0	1
AT5G04430		BTR1S, BTR1L, B...	BINDING TO TOMV RNA 1S \(SHORT...		Potri.008G030700 [exp]	1.41	0.6750
					Potri.011G164150 [exp]	4.47	0.6606
AT1G53820			RING/U-box superfamily protein...		Potri.003G073300 [exp]	15.81	0.6182
AT4G18950			Integrin-linked protein kinase...		Potri.004G064400 [exp]	23.97	0.5360
AT2G18670			RING/U-box superfamily protein...		Potri.018G098000 [exp]	50.39	0.5431
					Potri.002G213900 [exp]	77.94	0.5263
AT5G11500			unknown protein		Potri.006G241900 [exp]	79.54	0.5167
AT1G47870	E2F_DP	ATE2FC, ATE2F2,...	ARABIDOPSIS THALIANA HOMOLOG O...		Potri.002G023400 [exp]	94.74	0.4876	Pt-E2FC.1,E2Fc
AT3G58750		CSY2	citrate synthase 2 (.1)		Potri.016G089300 [exp]	111.14	0.4995
AT1G17130			Family of unknown function (DU...		Potri.001G377800 [exp]	121.47	0.4685

Compare expression of checked genes

Potri.001G342200 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.