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 AT4G39620 626 / 0 ATPPR5, EMB2453 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT3G06430 180 / 6e-51 AtPPR2, EMB2750 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G48730 171 / 2e-47 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G53170 161 / 1e-43 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G02860 155 / 3e-40 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G74750 150 / 1e-38 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G18900 144 / 2e-36 Pentatricopeptide repeat (PPR) superfamily protein (.1), Pentatricopeptide repeat (PPR) superfamily protein (.2), Pentatricopeptide repeat (PPR) superfamily protein (.3) AT2G41720 139 / 7e-35 EMB2654 EMBRYO DEFECTIVE 2654, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT2G35130 137 / 8e-35 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT3G18110 137 / 2e-34 EMB1270 embryo defective 1270, 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.010G153900 [exp] 174 / 9e-49 AT3G06430 717 / 0.0 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.008G098700 [exp] 174 / 2e-48 AT3G06430 692 / 0.0 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.015G069100 [exp] 160 / 3e-42 AT1G74850 1268 / 0.0 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) Potri.012G123600 [exp] 157 / 1e-41 AT2G35130 852 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Potri.002G243600 [exp] 155 / 1e-41 AT5G48730 691 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.009G058300 [exp] 154 / 3e-41 AT3G53170 618 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.007G084750 [exp] 138 / 2e-39 AT4G39620 123 / 2e-34 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Potri.006G242200 [exp] 145 / 1e-37 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.001G297300 [exp] 146 / 2e-37 AT5G02860 1129 / 0.0 Pentatricopeptide repeat (PPR) 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 Lus10035850 [exp] 667 / 0 AT4G39620 579 / 0.0 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10036632 [exp] 256 / 4e-83 AT4G39620 215 / 2e-67 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10036633 [exp] 252 / 4e-82 AT4G39620 218 / 9e-69 EMBRYO DEFECTIVE 2453, A. THALIANA PENTATRICOPEPTIDE REPEAT 5, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10027552 [exp] 169 / 4e-47 AT3G06430 501 / 1e-175 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10028683 [exp] 167 / 1e-45 AT3G06430 640 / 0.0 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10000862 [exp] 166 / 1e-45 AT3G06430 644 / 0.0 pentatricopeptide repeat 2, embryo defective 2750, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10024893 [exp] 159 / 7e-43 AT3G53170 543 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10011849 [exp] 157 / 3e-42 AT5G48730 681 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10022787 [exp] 155 / 3e-41 AT5G48730 687 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10002107 [exp] 150 / 1e-38 AT5G02860 1040 / 0.0 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.005G082400.4 pacid=42804647 polypeptide=Potri.005G082400.4.p locus=Potri.005G082400 ID=Potri.005G082400.4.v4.1 annot-version=v4.1 ATGCTATCACCACACTCTCTGCAACTCTCGACGCTCCATTCTTCTTCTTTTACCCATAACGTTTCTCTAATTTACAATCCCACCCCTTCTCTTCCATGGC ATCCAATGAAATATTCTCCAACACAGGTATCCTGTGTTTCCACCCGACCCAAAAAGAGACCGGTTCCAACCGACGAGAAATCGGAGGCACAAGAGCTAGT TCGGGTCCTTGTGAGGAGTTTCAGTGACAAACAACCTTTGGTCAAGACACTTAATAAGTATGTTAAAGTCATGAGGACTGAGCACTGCTTTATGCTGTTT GAAGAGCTTGGCAAGACTGACAAGTGGCTTCAATGCCTTGAGGTGTTCAGATGGATGCAAAAACAACGGTGGTATGTGGCGGATAATGGTTGTTATTCGA AGTTGATATCAGTTATGGGAAAGAAAGGTCAAACCCGGATGGCAATGTGGCTCTTTTCTGAGATGCGTAACAGTGGATGCAGGCCAGATACTTCAGTCTA CAATGCACTCATCACAGCCCACCTTCACTCCAAAGATAAAGCTAAGTCTTTGACTAAAGCTCTTGCATACTTTGAGAAGATGAAAAGTATTGAACGGTGC CAACCCAATGTTGTGACATATAATATTATTTTGAGAGCGTTTGCCCAAGCTCGAAATGTAAATCAAGTTAATGCTTTATTTAAAGATCTTGAGGAGAGCA TTGTTTCACCTGATATCTATACATATAATGGTGTATTGGATGCATACGGGAAGAATGGGATGATCAGAGAAATGGAATCTGTACTTTCTCGCATGAAAAT TGATCAATGTAAGCCTGATATTATTACTTTTAATTTGCTGATTGATTCATATGGGAAGAAGCAAGATTTTGAGAAGATGGAACAAGTTTTTAAGAGTTTA CTAAGGTCCAAGGAGAAACCAACTTTGCCTACATTCAATTCTATGATAGTAAATTATGGGAAGGCACGGCTGAAAGATAAAGCAGAGAGTGTTTTCAAGA AGATGGCTGATATGAGATACACACCAAGCTTCATCACATTCGAAAGTCTCATCATGATGTATGGAATTTGTGACTGTGTTTCTAAGGCCAGAGATATATT TGATGATATGGTTGAATCAGGAAAGGAGGTCAAAGTTTCTACTTTAAATGCCGTGCTTAATGTTTATTGTATGAATGGTTTGCATATGGAAGCGCATATA CTACTTGAAAATGCACGTAGTATTGGGGTGCCTCCAAATTCATCCACATATAAACTTCTTTACAGGGCCTACACCAAAGCTAAAATGAAGGAGCTTGTGC AGAAGTTGCTAAAGCATATGGACAAAGATGGTATCATCCCTAATAAGAGGTTCTTTGTGGATGCTTTGGGAGCTTCCAAATCTTCAGGGGCAAGTTCGGA TTCTACCATTCCTCTCAAAGATTCAAACAGTCCACAGAACGTTGCCAAGACTTTGGAAGAATGA
AA sequence Show only first row Show all	>Potri.005G082400.4 pacid=42804647 polypeptide=Potri.005G082400.4.p locus=Potri.005G082400 ID=Potri.005G082400.4.v4.1 annot-version=v4.1 MLSPHSLQLSTLHSSSFTHNVSLIYNPTPSLPWHPMKYSPTQVSCVSTRPKKRPVPTDEKSEAQELVRVLVRSFSDKQPLVKTLNKYVKVMRTEHCFMLF EELGKTDKWLQCLEVFRWMQKQRWYVADNGCYSKLISVMGKKGQTRMAMWLFSEMRNSGCRPDTSVYNALITAHLHSKDKAKSLTKALAYFEKMKSIERC QPNVVTYNIILRAFAQARNVNQVNALFKDLEESIVSPDIYTYNGVLDAYGKNGMIREMESVLSRMKIDQCKPDIITFNLLIDSYGKKQDFEKMEQVFKSL LRSKEKPTLPTFNSMIVNYGKARLKDKAESVFKKMADMRYTPSFITFESLIMMYGICDCVSKARDIFDDMVESGKEVKVSTLNAVLNVYCMNGLHMEAHI LLENARSIGVPPNSSTYKLLYRAYTKAKMKELVQKLLKHMDKDGIIPNKRFFVDALGASKSSGASSDSTIPLKDSNSPQNVAKTLEE

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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
AT4G39620		ATPPR5, EMB2453	EMBRYO DEFECTIVE 2453, A. THAL...		Potri.005G082400 [exp]	0	1
AT1G57790			F-box family protein (.1)		Potri.016G079300 [exp]	4.47	0.9354
AT1G08540		ATSIG1, SIG1, S...	SIGMA FACTOR B, RNA POLYMERASE...		Potri.019G044200 [exp]	5.09	0.9476
AT2G37920		EMB1513	embryo defective 1513, copper ...		Potri.006G092100 [exp]	5.38	0.9542
AT1G71720		PDE338	PIGMENT DEFECTIVE 338, Nucleic...		Potri.005G197900 [exp]	6.70	0.9467
AT5G42480		ARC6	ACCUMULATION AND REPLICATION O...		Potri.005G235000 [exp]	7.74	0.9403
AT1G33780			Protein of unknown function (D...		Potri.019G073000 [exp]	11.83	0.9307
AT5G64380			Inositol monophosphatase famil...		Potri.017G042900 [exp]	13.67	0.9355
AT2G31840		MRL7-L	Mesophyll-cell RNAi Library li...		Potri.007G145700 [exp]	14.00	0.9420
AT1G73400			Pentatricopeptide repeat (PPR)...		Potri.010G098600 [exp]	15.74	0.9038
AT1G11290		CRR22	CHLORORESPIRATORY REDUCTION22,...		Potri.003G191000 [exp]	18.22	0.9460

Compare expression of checked genes

Potri.005G082400 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.