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 AT1G12700 481 / 1e-161 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G62910 470 / 1e-158 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 469 / 2e-158 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62670 466 / 3e-157 RPF2 rna processing factor 2 (.1) AT1G63130 463 / 4e-156 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 462 / 7e-156 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63080 461 / 2e-155 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12300 460 / 8e-155 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62590 460 / 8e-155 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G63330 452 / 1e-152 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.006G242500 [exp] 738 / 0 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 729 / 0 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 721 / 0 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.018G038300 [exp] 718 / 0 AT1G12700 490 / 8e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074500 [exp] 714 / 0 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 711 / 0 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 710 / 0 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242200 [exp] 697 / 0 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074700 [exp] 696 / 0 AT1G62930 481 / 1e-164 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 Lus10029737 [exp] 522 / 3e-178 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014245 [exp] 518 / 5e-178 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10042768 [exp] 513 / 1e-174 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 508 / 6e-174 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 474 / 4e-161 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 471 / 1e-159 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 445 / 1e-149 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 402 / 8e-134 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10003427 [exp] 362 / 7e-120 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 363 / 5e-118 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 PF12854 [poplar] [flax] PPR_1 PPR repeat CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family
Representative CDS sequence Show only first row Show all	>Potri.013G149800.2 pacid=42810985 polypeptide=Potri.013G149800.2.p locus=Potri.013G149800 ID=Potri.013G149800.2.v4.1 annot-version=v4.1 ATGGCAATGAAGCGGCTAAGCCTTCTGCTCGCTCCATCTTCTGCTGCATCTCCAGCTTCTCCAGCCTTTCTTGGGTTTCCTTTTGAACGAAGCCAAATAA GAAATATGGGTATGATTCTTAAACCCTCTTTATTGTTCAAAGACAACAACCCCTTTTGCTGCCTTCATTCTTGCAGTAGTAGTGGGAGCTACAGACATAC TAAAGACAAAAAAGGTTGTTCTTTTAGCAACATTAATGATGCCTTGTCTGCCTTCAACCACATGCTTCATTTGCAACCTCAGCCTTCTATTGTCCAATTC AGTAAATTATTGTCTGCAGTTGTCAGAATGAGATATTATGAGACTGTGGTCTTTTTGTCCAAACAAATGGAACTTGCAGGAATCTCTCATAATGTTTATA CCTTTAACATCTTGATTAATTGCTTCTGCCACTTACATGCTGATTCTGGGTTCTCTGTATTGACCAAAATCATTAAACTTGGTTTTGAACCCAGTGTTGT CACTTTTTCTACCTTAGTTAATGGGCTTTGTATTGAGGGTAGAATTGCTCGAGCTGTGGAATTCTTTAATGACATGGTGGCAAGGGGATATGAACCTAAT CTACATACTTATAATACGATTATCAATGGTTTGTGTAAGATTGGAGATACCTCTGTGGCTGCTGGATTGCTCAAGAAAATGGACGAGGCAGGTTGTGAGC CGGATGTTGTGACATACAATACAATTATTGATAACCTTTGCAAGGATAGACTAGTCAATGAGGCTTTAGATATCTTCTCTCAGATGAAGGGTAAAAGCAT TAAGCCAGATGTTATCACATATACCTCTTTAATGCATGGCTTATGCAATTCAGGCCAGTGGAAGGAGGCTTCAGCATTGTTAAATGAAATGATGGGTCTG AATATCATGCTGGATGTAGTTACATTCAGCATGTTGATTGATACACTGTGTAAAGAAGGCGAGGTTTCAGAGGCTCAAGGTGTATTAAAACAAATGACAG AAAAAGGTGTGGAGCCTAACATTTTTACTTATAATTCATTGATGGACGGATACTGTCTCCGAAGGGAAGTTGTTGAAGCGAGAAAAATATTGGATGTTAT GATTAGCAAGGGTTGTTCACCTGATGTTTTTAGTTATAGTATTCTGATCAATGGATACTGTAAGACCAAGAGGATAGATGATGCGAAGCAGGTTTTTGAT GAAATGATTCATCAAGGCCTAATTCCCGACACTGTTAGTTACTCCAATCTTATAGGTGGCTTGTTTCAAGCAGGGAGAGTTTTGGAAGCAAAAGGGCTTT TGAAGGATATGTATACCCAGGGCCACTCCCTAAATTTAATAACTTGCTCAATTTTGCTTGATGGCTTAATCAAACAAGGTTGTTTTGATCAGGCGTTGGG ACTCTTTCGAGACATGCAAAATAGTTACTTGAAGCCTGATTTGGCAATCTATAATATCATAATCGATGCCATGTGCAAATCTGGGAAGCTTAAAGATGCA AGGGAGCTGTTTTTGGAACTCTCTGTCAAAGGGCTGCAGCCTAATGTTCGGGTTTGGACTACAATAATCAATGGACTTTGCAAAGAAGGATTGCTAGATG AAGCATACAAAGCTTTCAGACAAATGGAAGAGGATGGCTGCCCACCGGATAATTGTTCTTATAATGTTTTTATCCGAGGACTTCTCCAGCACAAGGATCC AAGGGCAGTGCAACTTATCAGTGAGATGACAGGCAAAGGATTCTCAGCAGATGTGCACACCACAGAGTTGGTGGTAGATGATGATCTTGTTGTCAAACAG TTGCTTGGCTCTTGTGAAGTTCATCAAGGGGAAAAGGTAGTCTTGTCAAAGTCTGGACCAAGCCGCCAACCACTTGCTTTTCTTTTGTGTGGTTGTTAG
AA sequence Show only first row Show all	>Potri.013G149800.2 pacid=42810985 polypeptide=Potri.013G149800.2.p locus=Potri.013G149800 ID=Potri.013G149800.2.v4.1 annot-version=v4.1 MAMKRLSLLLAPSSAASPASPAFLGFPFERSQIRNMGMILKPSLLFKDNNPFCCLHSCSSSGSYRHTKDKKGCSFSNINDALSAFNHMLHLQPQPSIVQF SKLLSAVVRMRYYETVVFLSKQMELAGISHNVYTFNILINCFCHLHADSGFSVLTKIIKLGFEPSVVTFSTLVNGLCIEGRIARAVEFFNDMVARGYEPN LHTYNTIINGLCKIGDTSVAAGLLKKMDEAGCEPDVVTYNTIIDNLCKDRLVNEALDIFSQMKGKSIKPDVITYTSLMHGLCNSGQWKEASALLNEMMGL NIMLDVVTFSMLIDTLCKEGEVSEAQGVLKQMTEKGVEPNIFTYNSLMDGYCLRREVVEARKILDVMISKGCSPDVFSYSILINGYCKTKRIDDAKQVFD EMIHQGLIPDTVSYSNLIGGLFQAGRVLEAKGLLKDMYTQGHSLNLITCSILLDGLIKQGCFDQALGLFRDMQNSYLKPDLAIYNIIIDAMCKSGKLKDA RELFLELSVKGLQPNVRVWTTIINGLCKEGLLDEAYKAFRQMEEDGCPPDNCSYNVFIRGLLQHKDPRAVQLISEMTGKGFSADVHTTELVVDDDLVVKQ LLGSCEVHQGEKVVLSKSGPSRQPLAFLLCGC

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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
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Potri.013G149800 [exp]	0	1
AT5G57140		ATPAP28, PAP28	purple acid phosphatase 28 (.1...		Potri.006G074300 [exp]	3.31	0.8356
					Potri.006G211800 [exp]	3.74	0.8606
AT2G31290			Ubiquitin carboxyl-terminal hy...		Potri.005G191100 [exp]	3.87	0.8452
AT1G31430			Pentatricopeptide repeat (PPR-...		Potri.003G088600 [exp]	6.92	0.8537
AT3G19740			P-loop containing nucleoside t...		Potri.005G093300 [exp]	7.54	0.8493
AT4G22860			Cell cycle regulated microtubu...		Potri.001G114400 [exp]	10.90	0.8445
AT3G47930		ATGLDH	"L-galactono-1,4-lactone dehyd...		Potri.016G040300 [exp]	11.18	0.8231	Pt-ATGLDH.1
AT5G06810			Mitochondrial transcription te...		Potri.016G048400 [exp]	11.48	0.8244
AT4G37740	GRF	ATGRF2	growth-regulating factor 2 (.1...		Potri.001G132600 [exp]	12.84	0.8146
AT5G16180		CRS1, ATCRS1	ARABIDOPSIS ORTHOLOG OF MAIZE ...		Potri.017G116700 [exp]	12.96	0.8460

Compare expression of checked genes

Potri.013G149800 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.