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 AT1G31430 689 / 0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT2G22410 493 / 2e-166 SLO1 SLOW GROWTH 1 (.1) AT3G15930 484 / 5e-163 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT2G29760 460 / 6e-153 OTP81 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G08070 457 / 6e-152 EMB3102, OTP82 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT2G13600 417 / 6e-137 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G14820 417 / 1e-136 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G04750 410 / 2e-134 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22690 409 / 6e-132 unknown protein AT3G29230 397 / 3e-130 Tetratricopeptide repeat (TPR)-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.003G031600 [exp] 543 / 0 AT3G15930 784 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.009G044700 [exp] 519 / 8e-176 AT2G29760 1013 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.001G019500 [exp] 508 / 1e-172 AT2G22410 791 / 0.0 SLOW GROWTH 1 (.1) Potri.018G071800 [exp] 473 / 3e-158 AT1G08070 606 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.018G040100 [exp] 459 / 9e-153 AT1G08070 974 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G103600 [exp] 453 / 2e-151 AT1G08070 477 / 7e-160 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G217900 [exp] 450 / 5e-150 AT2G22410 530 / 0.0 SLOW GROWTH 1 (.1) Potri.005G011000 [exp] 447 / 4e-147 AT1G08070 572 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G105700 [exp] 439 / 1e-145 AT3G08820 810 / 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 Lus10002288 [exp] 895 / 0 AT1G31430 689 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10004052 [exp] 886 / 0 AT1G31430 684 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10018223 [exp] 466 / 4e-155 AT2G29760 931 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10040680 [exp] 466 / 5e-155 AT2G29760 926 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10020918 [exp] 447 / 2e-149 AT2G29760 474 / 3e-159 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10033026 [exp] 445 / 5e-147 AT1G08070 921 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10010320 [exp] 424 / 1e-140 AT2G34400 658 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10030053 [exp] 424 / 2e-139 AT1G08070 884 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10029436 [exp] 424 / 2e-139 AT3G08820 828 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10009269 [exp] 414 / 5e-136 AT2G13600 874 / 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.003G088600.1 pacid=42787211 polypeptide=Potri.003G088600.1.p locus=Potri.003G088600 ID=Potri.003G088600.1.v4.1 annot-version=v4.1 ATGTCAACATGCCTTCCTGAAGGCAACGCCCTTCTCTTAATGCGGTTACTTTCCCGCCAGTGCTTCTCAAGACCCAAACAAATTTCTACTCTTGCAAAAT CCACAAAACTCAACCAACAATGCTGCATTTCTCTTCTTCGACACTGCAAAACAATGAACCAACTTAAACAAATCCAGGCCCAGATTTTCCGGGGCGGCCT CCATCAAAGCACAGACACTCTGAAGAAGCTCATGGTCTTTTGTGCAGACCCATCTAATGGAAACTTGGTTCATGCTGAAAGAATCTTCAATTATATTCAA AACCCAGGTTTATTTGTTTATAATATTATGATTAAAGCCTTTGCAAAGAAGGGTATCTTTAGAAAATGTTTAATGTTGTTCAATAAATTGAGGGAGGATG GTCTGTGGCCTGATAATTTTACTTACCCTTTTGTTTTGAAGGCGATTGGGTGCTTAGGAGAGGTTTTAGAAGCTGAAAAACTTCATGGATTTGTGATGAA AACCGGGCTTGAATCTGATACTTATGTGTGTAACCCACTCATTGATATGTATGCTAAATTGGGTCAAGTGGATGTTATGAGGAAGTTGTTTGATGAAATG CCTGAGAGAGATGTGGTTTCTTGGAATGTGTTGATTTCCGGGTATGTCAAGCGTAGAAGATTTGAGGATGCTATTGATGTTTTTTGTTGTATGAGAGAAG AGAGTTATTTGAGGCCTAATGAGCCTACGGTGGTGAGCACTCTTTCAGCTTGTGCGGCATTGAAGTGCTTGGAACTCGGCAAGGAAATTCATTGTTATGT AAGGGATAGACTTGAACTCACTTCTATTATTGGCAGTGCATTATTGGACATGTACTGTAAGTGTGGTTGTTTGAGTGTAGCCCGAAAAATATTTGACGAG ATGCCTCATAAAAATGTTATTTGTTGGACTAGTATGGTGTCAGGTTATGTAAACTATGGTGAGCTGGATAAGGCTAGAGAGTTGTTTGAGAGGAGTCCAG TTAAGGACGTTGTTCTTTGGACGGCGATGATTAATGGGTATGTGCAGTTTAATCATTTTGACGAGGCAGTGGCCCTGTTTCAAGAAATGCAAATCCAAAG GGTTAAGCCAGATAAGTTCGTACTGGTTGCTCTTCTCACAGGTTGTGCTCAAATGGGAGCTCTTGAGCAGGGGACTTGGATTCATGGATACATAGACGAG AAAGGAATTCCAGTTGATGCAGTTGTTGGAACTTCTCTTATAGAAATGTATTCCAAATGTGGGTGCATTGAAAAAGCTTTGAGGATTTTCTGTGGGCTGA GAGAAAAAGATACAGCTACATGGACTTCAATTATATGTGGGCTTGCTATGAATGGGAAAACAAGCAAGGCACTTGAATTGTTCTCAAAAATGAAACAAGT CGAGGCCATACCTGATGAAGTTACCTTCATTGGTGTTTTAAGTGCATGCAGCCATGGAGGACTGGTCGAAGAAGGCCGTGAGTTCTTTAATTCCATGACA AGTATTTATAATATTGAGCCTAAGTTAGAGCACTATGGGTGTCTGATTGACTTACTTGGTCGAGCTGGACAATTGGATGAAGCAGAAGAGTTGATAAAAA AAATAGTGAACGCAAATAATGAGATCATAGTTCCGCTTTATGGTTCTTTGCTCAGTGCTTGCAGAATCTATAAAAATGTTCAAATGGGTGAGCGGGTGGC TGAACAGCTCGTGAAAATTGAGTCAAGGGACTCTAGTGTTCACACGCTTCTCGCAAATATCTATGCCTCTGCTGGTAGATGGGTGGATGTAAACAGGGTG AGACGGGAAATGAAAGATCTTGGAGTAAAAAAGGTACCTGGTTGTAGCTCAATTGAGGTTGATGGCATAGTCCATGAGTTTCTTGTTGGGAATCCATCTT GTTCAGAGATGAGAGAAATATACTCCATGTTGGATAGGATGGTGAAGCCATTATTCAATTCAGAAGAGAATGAAATGGAAAGAGAAGAAACAGGTGCAAT GAACAGTTGCTGA
AA sequence Show only first row Show all	>Potri.003G088600.1 pacid=42787211 polypeptide=Potri.003G088600.1.p locus=Potri.003G088600 ID=Potri.003G088600.1.v4.1 annot-version=v4.1 MSTCLPEGNALLLMRLLSRQCFSRPKQISTLAKSTKLNQQCCISLLRHCKTMNQLKQIQAQIFRGGLHQSTDTLKKLMVFCADPSNGNLVHAERIFNYIQ NPGLFVYNIMIKAFAKKGIFRKCLMLFNKLREDGLWPDNFTYPFVLKAIGCLGEVLEAEKLHGFVMKTGLESDTYVCNPLIDMYAKLGQVDVMRKLFDEM PERDVVSWNVLISGYVKRRRFEDAIDVFCCMREESYLRPNEPTVVSTLSACAALKCLELGKEIHCYVRDRLELTSIIGSALLDMYCKCGCLSVARKIFDE MPHKNVICWTSMVSGYVNYGELDKARELFERSPVKDVVLWTAMINGYVQFNHFDEAVALFQEMQIQRVKPDKFVLVALLTGCAQMGALEQGTWIHGYIDE KGIPVDAVVGTSLIEMYSKCGCIEKALRIFCGLREKDTATWTSIICGLAMNGKTSKALELFSKMKQVEAIPDEVTFIGVLSACSHGGLVEEGREFFNSMT SIYNIEPKLEHYGCLIDLLGRAGQLDEAEELIKKIVNANNEIIVPLYGSLLSACRIYKNVQMGERVAEQLVKIESRDSSVHTLLANIYASAGRWVDVNRV RREMKDLGVKKVPGCSSIEVDGIVHEFLVGNPSCSEMREIYSMLDRMVKPLFNSEENEMEREETGAMNSC

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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
AT1G31430			Pentatricopeptide repeat (PPR-...		Potri.003G088600 [exp]	0	1
AT5G21970			Ubiquitin carboxyl-terminal hy...		Potri.006G218100 [exp]	3.16	0.8929
AT1G24340		EMB260, EMB2421	EMBRYO DEFECTIVE 260, EMBRYO D...		Potri.008G178400 [exp]	5.29	0.8503
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Potri.013G149800 [exp]	6.92	0.8537
AT4G39952			Pentatricopeptide repeat (PPR)...		Potri.005G074000 [exp]	9.16	0.8708
AT5G06540			Pentatricopeptide repeat (PPR)...		Potri.016G065500 [exp]	10.95	0.8908
AT5G39350			Tetratricopeptide repeat (TPR)...		Potri.004G124400 [exp]	11.31	0.8882
AT1G16480			Tetratricopeptide repeat (TPR)...		Potri.007G068600 [exp]	12.56	0.8921
AT3G56550			Pentatricopeptide repeat (PPR)...		Potri.016G029500 [exp]	13.85	0.8714
AT1G20230			Pentatricopeptide repeat (PPR)...		Potri.002G021300 [exp]	14.42	0.8757
AT5G03770		AtKdtA, KDTA	KDO transferase A (.1)		Potri.016G095900 [exp]	16.97	0.7868

Compare expression of checked genes

Potri.003G088600 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.