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 AT1G07740 502 / 2e-176 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G18475 179 / 1e-50 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G20090 179 / 2e-49 EMB1025 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G06580 170 / 2e-47 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G16420 169 / 2e-46 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G63230 163 / 3e-46 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12775 166 / 5e-45 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 166 / 5e-45 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G05670 167 / 8e-45 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) AT1G62910 165 / 1e-44 Pentatricopeptide repeat (PPR) 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.001G020501 [exp] 277 / 2e-92 AT1G07740 218 / 4e-70 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.002G103600 [exp] 200 / 3e-58 AT5G18475 546 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G034200 [exp] 192 / 1e-54 AT1G12700 511 / 6e-174 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.011G057900 [exp] 185 / 4e-53 AT5G46100 627 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.014G105900 [exp] 180 / 3e-51 AT4G01400 576 / 0.0 unknown protein Potri.005G046200 [exp] 182 / 5e-51 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.001G075900 [exp] 182 / 2e-50 AT4G20090 806 / 0.0 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G032600 [exp] 180 / 4e-50 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.017G032100 [exp] 176 / 4e-49 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like 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 Lus10040869 [exp] 528 / 0 AT1G07740 491 / 5e-172 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10005876 [exp] 295 / 8e-99 AT1G07740 256 / 5e-84 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10005877 [exp] 202 / 3e-62 AT1G07740 212 / 2e-66 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10005540 [exp] 182 / 2e-51 AT5G18475 562 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10042452 [exp] 180 / 5e-51 AT1G53330 442 / 1e-152 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10013283 [exp] 182 / 1e-50 AT1G05670 785 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) Lus10038377 [exp] 182 / 1e-50 AT4G20090 841 / 0.0 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10036238 [exp] 175 / 6e-48 AT4G20090 832 / 0.0 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10026218 [exp] 171 / 2e-47 AT1G53330 440 / 2e-151 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012328 [exp] 172 / 2e-46 AT3G53700 1010 / 0.0 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF01535 [poplar] [flax] PPR PPR repeat CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family CL0020 [poplar] [flax] TPR PF13812 [poplar] [flax] PPR_3 Pentatricopeptide repeat domain
Representative CDS sequence Show only first row Show all	>Potri.003G204100.1 pacid=42786996 polypeptide=Potri.003G204100.1.p locus=Potri.003G204100 ID=Potri.003G204100.1.v4.1 annot-version=v4.1 ATGATCCTCTCAAACCCAACCAAAACCCACCATTTCTGGCGTCACACTTTTTTTCAACAGTACAGAACTCTCCCCTTCAACAAACCCAAAGCCAAACCAA GACATCGAAGAAAGGGTCACAAAACAAGCTCGAGAAATCGCAATGATGCACCATTTGTGAACCATGTGAAAGAAGCACGAGACCCAGTTGAGGCTTTAAC TCTATTTCATGAGTATCTCCAAAGGGGGTTTAAGCCTGACTACCCTTCATACGCTGCTCTCTTATACAAACTCGCACGTTGCCAGGATTTTGGCGCTGTT GAGGAAGTTCTTCGTTATGTAGAAGATAAGAATGTTCATTGTCAAGAAACCATTTTCATTGCTTTGTTTCAACATTACGGAAAAGCCCAATTGGTCCATA AGGCTGTTGAGCTTTTTAATAGAATGACCCGGTTTAACTGTGTCCGTACATCTCAGTCTTTGAATAGTCTGCTTAATGTTCTTGTTGATAATGGTTGGTT TCTTGAGGCCAATGAGTTGTTTGATAAGGGTTATGAAATGGGGTTCCGTTTGAATTCCGTTGCTTTTAATGTAATGATTAAAGGGTGGCTCAAGAAGGGG GAGTGGGAGCAAGCGAGCAAGGTGTTTGATGAAATGCTTGAGAGGAAAGTGGAACCGAGTGTTGTGACGTATAATAGTCTTATTGGGTATTTGTGTAGAA ATGGTGAGTTGGATAAAGCAAAGGGTTTGTTAGAGGATATGATTAAGAAAGGAAAACGTCCCAATGCGATTACATTTGCTTTGTTAATGGAAGGTTCGTG CTTGATAGGTGAGCATAATGAGGCTAAAAAGATGATGTTTGATATGGAATATAGAGGGTGTAAACCTACAGTTGTGAATTTTGGTGTTTTGATGAGTGAT CTTGGGAAGAGAGGGAAGATTGACGAAGCAAAATCTGTGCTTCATGAAATGAAGAAGAGGCATATGAAGCCGGATGTTGTCACTTACAATATATTGATCA ATTATCTTTGTAAGGAGGGTAGAGCGGCTGATGCTTATGAAGTTTTGTTTGAAATGCAAGTTGGAGGTTGTGAAGCCAATGCTGCTACTTACAGAATGCT GGTTGATGGGTTTTGCCGGGTTGGGGACTTTGAGGGAGGTCTAAAGGTTCTGAATGCAATGTTGACAAGTGGGCATTTTCCACGTGTTGAAACATTCCGT TCTTTGGTTGTTGGCCTTGTGAAGTCTGGAAACCTTGATGGTGCTTGCTTTGTTCTGGAGGAGATGGAGAAGAGACAGATGATGTTCTGTCCAGATGATT GGGAAGCCCTTGTCATGGAATCTTGTCGTGGAGATGAAAATGGAAGTGTAGGTGAACATGTAAATGAACTGGTCTTGGCCATGGAAGCGTAA
AA sequence Show only first row Show all	>Potri.003G204100.1 pacid=42786996 polypeptide=Potri.003G204100.1.p locus=Potri.003G204100 ID=Potri.003G204100.1.v4.1 annot-version=v4.1 MILSNPTKTHHFWRHTFFQQYRTLPFNKPKAKPRHRRKGHKTSSRNRNDAPFVNHVKEARDPVEALTLFHEYLQRGFKPDYPSYAALLYKLARCQDFGAV EEVLRYVEDKNVHCQETIFIALFQHYGKAQLVHKAVELFNRMTRFNCVRTSQSLNSLLNVLVDNGWFLEANELFDKGYEMGFRLNSVAFNVMIKGWLKKG EWEQASKVFDEMLERKVEPSVVTYNSLIGYLCRNGELDKAKGLLEDMIKKGKRPNAITFALLMEGSCLIGEHNEAKKMMFDMEYRGCKPTVVNFGVLMSD LGKRGKIDEAKSVLHEMKKRHMKPDVVTYNILINYLCKEGRAADAYEVLFEMQVGGCEANAATYRMLVDGFCRVGDFEGGLKVLNAMLTSGHFPRVETFR SLVVGLVKSGNLDGACFVLEEMEKRQMMFCPDDWEALVMESCRGDENGSVGEHVNELVLAMEA

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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
AT1G07740			Tetratricopeptide repeat (TPR)...		Potri.003G204100 [exp]	0	1
AT1G48570			zinc finger (Ran-binding) fami...		Potri.015G038200 [exp]	2.44	0.9359
AT1G30010			Intron maturase, type II famil...		Potri.004G132450 [exp]	3.31	0.9390
AT3G11110			RING/U-box superfamily protein...		Potri.008G071000 [exp]	3.87	0.9207
AT3G22670			Pentatricopeptide repeat (PPR)...		Potri.010G083900 [exp]	4.47	0.9272
AT5G06400			Pentatricopeptide repeat (PPR)...		Potri.006G200800 [exp]	4.89	0.9297
AT3G25440		LOH1	LAG One Homologue 1, RNA-bindi...		Potri.014G176900 [exp]	12.96	0.8793
AT4G35130			Tetratricopeptide repeat (TPR)...		Potri.004G178200 [exp]	14.28	0.9138
AT5G40410			Tetratricopeptide repeat (TPR)...		Potri.002G014800 [exp]	14.38	0.9091
AT1G78930			Mitochondrial transcription te...		Potri.007G001800 [exp]	14.69	0.9103
AT3G14730			Pentatricopeptide repeat (PPR)...		Potri.006G090900 [exp]	17.54	0.9072

Compare expression of checked genes

Potri.003G204100 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.