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 AT5G40400 635 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G39710 263 / 6e-78 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G55840 261 / 3e-75 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G01110 251 / 7e-74 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G05670 246 / 4e-72 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) AT1G09820 239 / 2e-70 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT2G02150 236 / 3e-68 EMB2794 EMBRYO DEFECTIVE 2794, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G26680 223 / 4e-65 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT2G15630 221 / 2e-63 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G11690 218 / 4e-63 Pentatricopeptide repeat (PPR-like) 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.001G276500 [exp] 268 / 7e-80 AT5G01110 863 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G014500 [exp] 254 / 9e-75 AT1G09820 696 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.004G147700 [exp] 243 / 1e-71 AT2G15630 736 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.010G098400 [exp] 244 / 4e-71 AT2G02150 924 / 0.0 EMBRYO DEFECTIVE 2794, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.015G105400 [exp] 248 / 7e-71 AT5G61990 773 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.009G105600 [exp] 237 / 2e-68 AT5G39710 1022 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G034300 [exp] 230 / 2e-68 AT1G62930 397 / 4e-133 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.014G040200 [exp] 238 / 5e-68 AT1G19290 883 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G038400 [exp] 231 / 4e-67 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.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 Lus10013077 [exp] 770 / 0 AT5G40400 587 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10022262 [exp] 325 / 2e-107 AT5G40400 248 / 6e-78 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027914 [exp] 258 / 5e-76 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10012068 [exp] 256 / 7e-74 AT5G39710 1028 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027916 [exp] 246 / 1e-71 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10012037 [exp] 242 / 4e-71 AT2G15630 677 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10008185 [exp] 246 / 2e-70 AT1G19290 864 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027974 [exp] 242 / 9e-70 AT1G19290 480 / 1e-156 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10007468 [exp] 239 / 2e-69 AT5G01110 808 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10013283 [exp] 234 / 3e-68 AT1G05670 785 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2)
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
Representative CDS sequence Show only first row Show all	>Potri.017G071600.5 pacid=42813148 polypeptide=Potri.017G071600.5.p locus=Potri.017G071600 ID=Potri.017G071600.5.v4.1 annot-version=v4.1 ATGAATAGAGTTTCAATCAGAATCCTTAAAATCTCAAAAACCTTTGCATCTAATGCACAAAACCACACACTTACTAAGAATTTAGTACCTTCTTCTTCTT CTTCTCTTCAAACAATACAAAACTCCAACTCCATCTCTCTCTCAAACCCACTTTACAGTTTCCTCCCTGAAAATCAAAACCCCAACAACTTTGTCAATCT CATTTACTCCTCTCTCAAACGAGACAACACCCAGTTAACCCTTCTTCAAAATGATGACATAAAGGGGCTTATTCATCATCTGGGTGCCAATGAAATCTCT AGGGTTTTATTAAGATGCCAGTCCGATTCCGTTTCAGCTCTCACTTTCTTTAACTGGGTCAAAAATGATCTGGGTCTCAAACCCTCTACTCTTAACTATT GTCTTATTCTTCATGTTTTAGCTTGGTCTAAAGAATTCGAACAAGCTATGAAATTCTTAACTGAATTGATTCTGTTGGTTAAAGATACTGATGAAGATGT GTTTCAATGTTTGTTTTTGTGTTGTCAAGACTGTAATTGGGACCCTATTATTTTTGATTTGTTACTCAAGGCTTATGTGAAAGCGGGTATGATTAAAGAA GGTTTTAGGACTTTTATGCAGATTTTAGAGGTTGGTTATGTTCCTAGTGTGATTGCTTGCAATTATCTTCTGAATGGGTTGTTAAAGTCGAATCATATCC ATCTTTGCTGGCATGTTTATGGAGAGATGGGAAGAGTTGGTGTTATCCCGAATTCATATACATTTAATATTCTGACCCATCTATTTTGCAAGGATGGAGA TATCGATAAGATGAATGATTTCTTGGAGAAGATGGAGGAAGAGGGCTTTGAGCCAGATATAGTGACATATAATACGCTGATTAATGGCTATTGTGGAAGA GGAAGATTGAGTGATGCGTTTTATTTGTACAGGATAATGTATAGAAGGTGTGTCTTGCCAGATTTGGTTTCATATACTGCATTAATGAATGGCCTTTGTA AAGAAGGAAGGGTGAGAGAGGCTCACCAACTCCTTCATAGAATGGTTCACAGAGGGTTGAATCCAGATGTTGTTTCATATAATACTCTTATTTGTGGTTA TTGCAAGGAAGGAAAGATGCTAGAGTCTAAGTCATTGTTGTATGAGATGATAGGAAATGGGATTTTCCCCGATAGTTTTACTTGTCGGGTTCTTATTCAA GGATACAGGAAAGAGGGTTGGTTAATTTCCGCTTTGAACTTGGTTGTGGAGCTTGAGAAATTTGGTGTTTCAATCTCACCAGATATTTATGATTATCTAG TAGCTTCTTTATGTGAAGAGGATAGACCGTTTGCAGCAAAGACTCTTCTGGAAAGAATGTCTCAGCGTGGTTATATACCTCATGTGGAAATCTATAATAA ACTCATCGAGTCTCTCTGCAAAGGTGATTGTGTAGCAGATGCATTATCTCTAAAAGCTGAGATTGTTGTTGGGAACATAAACCCAAATCTTCTTACCTAT AAAGCCCTCATTCGCTGCTTGTGTAGAATGGGCAGAAGTATAGAGGCTGAAAAGTTGATGGAAGAAATGCTTCATTTTGGTTTGCAACCTGATCCAGAAA TATGCAGAGCCATGATACATGGGTACTGCAGAGAAAAGGATGCTGGCAAAGCAGAATCGTTATTGGTATTGTTTGCCAAGGAATTTCAAATTTTTGATAG TGAGAGTTATAGTACACTTGTCAGAATTGTTTGTGAAGATGGTGATGTGGCCAAGTTCATGGAGCTGCAAGAACGGATGCTGAAAGTTGGATTTGCACCA AATAGCCTAACTTGCAAATACATGATTGATGGCTTAAGGAAAAATGTGGGGCTGGTCAAAGAAAAACTTATACTTGAATGA
AA sequence Show only first row Show all	>Potri.017G071600.5 pacid=42813148 polypeptide=Potri.017G071600.5.p locus=Potri.017G071600 ID=Potri.017G071600.5.v4.1 annot-version=v4.1 MNRVSIRILKISKTFASNAQNHTLTKNLVPSSSSSLQTIQNSNSISLSNPLYSFLPENQNPNNFVNLIYSSLKRDNTQLTLLQNDDIKGLIHHLGANEIS RVLLRCQSDSVSALTFFNWVKNDLGLKPSTLNYCLILHVLAWSKEFEQAMKFLTELILLVKDTDEDVFQCLFLCCQDCNWDPIIFDLLLKAYVKAGMIKE GFRTFMQILEVGYVPSVIACNYLLNGLLKSNHIHLCWHVYGEMGRVGVIPNSYTFNILTHLFCKDGDIDKMNDFLEKMEEEGFEPDIVTYNTLINGYCGR GRLSDAFYLYRIMYRRCVLPDLVSYTALMNGLCKEGRVREAHQLLHRMVHRGLNPDVVSYNTLICGYCKEGKMLESKSLLYEMIGNGIFPDSFTCRVLIQ GYRKEGWLISALNLVVELEKFGVSISPDIYDYLVASLCEEDRPFAAKTLLERMSQRGYIPHVEIYNKLIESLCKGDCVADALSLKAEIVVGNINPNLLTY KALIRCLCRMGRSIEAEKLMEEMLHFGLQPDPEICRAMIHGYCREKDAGKAESLLVLFAKEFQIFDSESYSTLVRIVCEDGDVAKFMELQERMLKVGFAP NSLTCKYMIDGLRKNVGLVKEKLILE

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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
AT5G40400			Pentatricopeptide repeat (PPR)...		Potri.017G071600 [exp]	0	1
AT5G13970			unknown protein		Potri.002G238100 [exp]	1.41	0.9194
AT4G15820			unknown protein		Potri.008G222000 [exp]	1.41	0.9276
AT2G43250			unknown protein		Potri.007G124700 [exp]	2.44	0.9062
AT3G63390			unknown protein		Potri.002G047400 [exp]	4.47	0.9003
AT2G31600			unknown protein		Potri.017G035200 [exp]	6.00	0.8965
AT3G53700		MEE40	maternal effect embryo arrest ...		Potri.017G033000 [exp]	7.93	0.8728
AT5G18390			Pentatricopeptide repeat (PPR)...		Potri.019G025700 [exp]	8.00	0.9037
AT1G73710			Pentatricopeptide repeat (PPR)...		Potri.013G144800 [exp]	13.74	0.8965
AT4G28010			Tetratricopeptide repeat (TPR)...		Potri.009G069600 [exp]	16.06	0.8382
AT1G77360			Tetratricopeptide repeat (TPR)...		Potri.017G126600 [exp]	16.70	0.8648

Compare expression of checked genes

Potri.017G071600 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.