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 AT1G62930 450 / 3e-152 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 425 / 1e-142 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63400 422 / 4e-142 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G22470 424 / 5e-142 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63080 423 / 5e-142 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12700 425 / 3e-141 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G63130 419 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62590 418 / 1e-139 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G12775 418 / 1e-139 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 417 / 1e-139 RPF2 rna processing factor 2 (.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.018G038300 [exp] 761 / 0 AT1G12700 490 / 8e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 726 / 0 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G149800 [exp] 683 / 0 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 640 / 0 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 624 / 0 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 622 / 0 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242200 [exp] 621 / 0 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074500 [exp] 612 / 0 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 612 / 0 AT1G62930 475 / 3e-161 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 Lus10008593 [exp] 476 / 4e-163 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 476 / 8e-163 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10029737 [exp] 464 / 8e-157 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10042768 [exp] 460 / 3e-155 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 443 / 5e-150 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 427 / 9e-144 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 427 / 2e-143 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 404 / 7e-136 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10003427 [exp] 352 / 3e-117 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 333 / 2e-107 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family
Representative CDS sequence Show only first row Show all	>Potri.017G032100.1 pacid=42813470 polypeptide=Potri.017G032100.1.p locus=Potri.017G032100 ID=Potri.017G032100.1.v4.1 annot-version=v4.1 ATGGCCATGGCAATGAAGCGGCAAAGTGCTGTAATGGCCATTTCTTCTTCAGCTTCAACCCTTTTAGGGTTTCATTCTCAGCGAAGCCAAACTGAAAAGG GTATGATTTGCTGTCTTCATACTTCCACTATTAGTCGTAGTCGTAGTGGTAGTGGTAGGCAAAAGTACCAAAAGGGATGTTCTCTTACAAACATTGAAGA TGCCTTGTTTTCTTTCAACCACATGATTCATAAGCATCCCCTGCCTTGTATTGTTGAATTTGATAAGTTATTATCAGCTCTTGTTAGAATCAAACATTAT GGGACTGTGCTTTCTTTGTCCAAACGAATTGAATTGCTGCGGATTGAACGTGATGTCTTTCATTTTAACATTTTGATCAATTGCTTCTCTCGCTTGCAAC GTGTCGATTTTGCGTTCTCTGTCTTGGGAAAAATCATTAAGCTTGGTTTTGAACCTGATGCTGTGACTTTTTCTAGTTTAATTAATGGGCTTTGTTTTGA GGATAAATTTGCTCGTGCTATGGAATTCTTTGATGAGATGGTGGCGAGCGGATATCAACCCAATCTACATACTTATAATACGATTATAAAAGGTTTTTGC AAGATTGGGAAAACCACTGTCGCTGTTGGATTGCTCAAGAAAATGGACAAGGCAGGTGGCCGGCCGGATATTGTAATCTACAATACAATTATTGATGGCC TTTGCAAGGATAGACTAGTCAGTGAAGCTTTAGATATCTTCTCTGAGATAAAGGGTAAAGGTGTTCGGCCTGATGTTTTCACTTATAGTATCTTAATGCA TGGTCTATGCAATTCAGACCAGAAGGAAGAGGCTTCAGCATTGTTCAATGAAATGATGAGTCTGAACATCATGCCAGATGTAGTTACCTTCAATATTTTG GTTGATAAACTTTGTAAAGAAGGCATGCTTTCAGAGGCTCAAGGAATAATCAAAATAATGATTGAAAAGGGTGTGGAGCCTAATTATGCGACTTATAATT CGTTGATGAATGGCTATTGTTTGCAAAACAAAGTTTTTGAAGCTAGAATGGTATTCGATGCAATGATAACCAAGGGCTGCATGCCTAATGTTGTTAGTTA CAACATCTTAATCAATGGATATTGTAAGGCCCAGAGGATAGATGAGGCAAGAGAACTTTTCGATGAAATGAGTTTTCGAGGCTTAATTCCTAACACTTTT AATTACAACACTCTTATTAGTGGCTTGTGCCAAGCAGGGAGACATTGTGAAGCAAGAGAGCTTTTCAAGGATATGCAAGCCCAGGGCTGCTCCCCAGATT TAGTAACTTGCACAATTTTGCTCGACAGCTTATGCAAACTAGGGTATCTTGATAATGCATTGAGATTGTTTAGAGCAATGCAAGATAGTTGCTTGAAACC TAATTTGGTAACCTATGATATCCTGATTCGCGCCATGTACAAATCTGGGAATCTTAAAACTGCAAGGGAACTGTTTATGGAATGCACATTCAATGGATTG CAACCTAATGCTAGGGTATCTACTGCAATAATAAATGGACTTTGCAGAGAAGATTTGATAGATGAAGCGTACAAAGCTTTCAGAAAAATGGAAGAGGATG GCTGTCCACCAGATGTTTGCTCATACAATGTTATTGTCTGA
AA sequence Show only first row Show all	>Potri.017G032100.1 pacid=42813470 polypeptide=Potri.017G032100.1.p locus=Potri.017G032100 ID=Potri.017G032100.1.v4.1 annot-version=v4.1 MAMAMKRQSAVMAISSSASTLLGFHSQRSQTEKGMICCLHTSTISRSRSGSGRQKYQKGCSLTNIEDALFSFNHMIHKHPLPCIVEFDKLLSALVRIKHY GTVLSLSKRIELLRIERDVFHFNILINCFSRLQRVDFAFSVLGKIIKLGFEPDAVTFSSLINGLCFEDKFARAMEFFDEMVASGYQPNLHTYNTIIKGFC KIGKTTVAVGLLKKMDKAGGRPDIVIYNTIIDGLCKDRLVSEALDIFSEIKGKGVRPDVFTYSILMHGLCNSDQKEEASALFNEMMSLNIMPDVVTFNIL VDKLCKEGMLSEAQGIIKIMIEKGVEPNYATYNSLMNGYCLQNKVFEARMVFDAMITKGCMPNVVSYNILINGYCKAQRIDEARELFDEMSFRGLIPNTF NYNTLISGLCQAGRHCEARELFKDMQAQGCSPDLVTCTILLDSLCKLGYLDNALRLFRAMQDSCLKPNLVTYDILIRAMYKSGNLKTARELFMECTFNGL QPNARVSTAIINGLCREDLIDEAYKAFRKMEEDGCPPDVCSYNVIV

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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
AT1G62930		RPF3	RNA processing factor 3, Tetra...		Potri.017G032100 [exp]	0	1
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Potri.005G046100 [exp]	6.78	0.7308
AT5G53220			unknown protein		Potri.015G022500 [exp]	23.40	0.7046
AT1G12580		PEPKR1	phosphoenolpyruvate carboxylas...		Potri.012G134600 [exp]	41.76	0.6913	Pt-CDPK5.3
AT5G50990			Tetratricopeptide repeat (TPR)...		Potri.012G109300 [exp]	42.00	0.6631
AT1G19520		NFD5	NUCLEAR FUSION DEFECTIVE 5, pe...		Potri.005G228200 [exp]	53.67	0.6215
AT2G15790		CYP40, SQN	SQUINT, CYCLOPHILIN 40, peptid...		Potri.009G106200 [exp]	54.49	0.6738	SQN.1
AT1G21200	Trihelix		sequence-specific DNA binding ...		Potri.005G191700 [exp]	58.48	0.6255
AT5G15570			Bromodomain transcription fact...		Potri.017G094900 [exp]	62.66	0.6697
AT3G01600	NAC	ANAC044	NAC domain containing protein ...		Potri.001G343800 [exp]	66.72	0.6277
AT1G63080			Pentatricopeptide repeat (PPR)...		Potri.005G047400 [exp]	76.13	0.6220

Compare expression of checked genes

Potri.017G032100 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.