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 481 / 1e-164 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 466 / 7e-159 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 465 / 8e-159 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 465 / 2e-158 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12700 462 / 9e-156 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G12300 456 / 6e-155 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 455 / 1e-154 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63330 453 / 1e-154 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 454 / 3e-154 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G62670 451 / 4e-153 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.006G242500 [exp] 927 / 0 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 922 / 0 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074500 [exp] 921 / 0 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 919 / 0 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271200 [exp] 917 / 0 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G257300 [exp] 897 / 0 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242200 [exp] 893 / 0 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G149800 [exp] 696 / 0 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.018G038300 [exp] 657 / 0 AT1G12700 490 / 8e-166 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 Lus10029737 [exp] 504 / 1e-172 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10042768 [exp] 497 / 6e-170 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 493 / 1e-169 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 488 / 7e-168 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 469 / 1e-160 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 452 / 1e-153 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 447 / 3e-152 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 420 / 3e-142 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10014247 [exp] 384 / 2e-127 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003427 [exp] 331 / 2e-109 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.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
Representative CDS sequence Show only first row Show all	>Potri.004G074700.1 pacid=42795875 polypeptide=Potri.004G074700.1.p locus=Potri.004G074700 ID=Potri.004G074700.1.v4.1 annot-version=v4.1 ATGCCAAATGAAAATAATGGAAACATTGATGTTGCCCTTGCTTCTTTCAATCAAATGCTTCATAGGAAACCCCTGCCTTGTATCATCCAATTCAATCAAT TATTATCTGCAATTGTCAAAATGAGACAGTATTACGATGCTGTGATTTCTCTTTCCAAACAAATGGAATTAGCTGGGCTCTCTCCTAATACTTGTACGCT TAATATCTTGATTAATTGCTTCTGCCAGTTGCAACATGTTGATCTTGGGTTCTCTGTCTTGGCCAAAGGCATTAAACTTGGTCTTCAACCCACCATTGTC ACATTTACCACCTTAATCAATGGGCTCGGTAAGGTGGGTAAATTTGCCCAAGCCGTGGAATTATTTGATGACATGGTGGCAAGAGGGTGTCAACCTGATG ACTACACTTATACTACGATTATCAATGGCTTATGTAAGATTGGGGAAACTGCTCTGGCTGCTGGATTGTTTAAGAAAATGGAAGAGGCAGGCTGCCAGCT GAATGTGGTGACATACAGTACACTCATCCACAGTCTTTGCAAATACAGGCGGGTGAATGAGGCTTTAGATATCTTCTCTTATATGAAGGCTAAAGACATT TCCCCAACAATTTTCACTTACACCTCTCTGATCCAGGGCTTATGCAATTTCAGCCGATGGAAGGAGGCTTCGGCATTGCTAAATGAAATGACGAGTTTGA ATATCATGCCAAATGTTGTCACCTTCAACGTGCTAGTTGATACATTTTGTAAAGAAGGCAAGGTTTTAGCGGCTGAAGGTGTGTTAAAAACAATGACTGA AATGGGTGTGGAGCCTGATGTAGTGACTTACAATTCTTTGATGTATGGATATTCCATGTGGACGGAAGTTGTTGAAGCTAGAAAGCTTTTCGATGTTATG ATAACCAAGGGTTGTAAACCTGATGTTTTTAGTTACAGCATCTTAATTAACGGATATTGTAAGGCCAAAAGGATAGATGAGGCCAAGCAACTTTTTAATG AAATGATTCATCAAGGCTCAACTCCGAACAATGTTAGTTACAACACTCTTATTCATGGATTATGCCAATTAGGCAGACTTAGGGAAGCACAAGATCTTTT CAAGAATATGCACACTAATGGAAACCTCCCAAATTTATATACTTACGCAATATTGCTTGATGGCTTTTGCAAACAAGGGTATCTTGGAAAGGCATTCAGA TTGTTTCGAGCAATGCAAAGTACTTACTTGAAGCCTAATTTGGTGATGTATAACATCCTAGTTAATGCCATGTGCAAATCCGGGAATCTTAAAGATGCAA GGGAACTGTTTTCAGAACTCTTTGTCATCGGGTTGCAGCCTAATGTTCAGATATACACTACAATAATAAATGGACTTTGTAAAGAAGGGTTGTTAGATGA AGCATTGGAAGCTTTCCGAAATATGGAAGACGATGGCTGCCCTCCAGATGAATTTTCTTATAATGTTATTATCCGAGGATTTCTCCAACACAAGGATGAA TCAAGGGCAGTGCATCTTATCGGTGAAATGAGAGACAGAGGTTTCATTACAGATGCGGGAACCACAGCTTGGTAG
AA sequence Show only first row Show all	>Potri.004G074700.1 pacid=42795875 polypeptide=Potri.004G074700.1.p locus=Potri.004G074700 ID=Potri.004G074700.1.v4.1 annot-version=v4.1 MPNENNGNIDVALASFNQMLHRKPLPCIIQFNQLLSAIVKMRQYYDAVISLSKQMELAGLSPNTCTLNILINCFCQLQHVDLGFSVLAKGIKLGLQPTIV TFTTLINGLGKVGKFAQAVELFDDMVARGCQPDDYTYTTIINGLCKIGETALAAGLFKKMEEAGCQLNVVTYSTLIHSLCKYRRVNEALDIFSYMKAKDI SPTIFTYTSLIQGLCNFSRWKEASALLNEMTSLNIMPNVVTFNVLVDTFCKEGKVLAAEGVLKTMTEMGVEPDVVTYNSLMYGYSMWTEVVEARKLFDVM ITKGCKPDVFSYSILINGYCKAKRIDEAKQLFNEMIHQGSTPNNVSYNTLIHGLCQLGRLREAQDLFKNMHTNGNLPNLYTYAILLDGFCKQGYLGKAFR LFRAMQSTYLKPNLVMYNILVNAMCKSGNLKDARELFSELFVIGLQPNVQIYTTIINGLCKEGLLDEALEAFRNMEDDGCPPDEFSYNVIIRGFLQHKDE SRAVHLIGEMRDRGFITDAGTTAW

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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.004G074700 [exp]	0	1
AT5G54650		ATFH5, Fh5	FORMIN HOMOLOGY 5, formin homo...		Potri.001G416100 [exp]	1.41	0.8516
AT4G08460			Protein of unknown function (D...		Potri.005G172300 [exp]	12.48	0.8486
AT4G36660			Protein of unknown function (D...		Potri.014G181600 [exp]	14.38	0.8115
AT3G09090		DEX1	DEFECTIVE IN EXINE FORMATION 1...		Potri.006G096100 [exp]	16.94	0.8387	DEX1.1
AT4G35830		ACO1	aconitase 1 (.1.2)		Potri.015G130201 [exp]	18.57	0.8228
AT3G05520			Subunits of heterodimeric acti...		Potri.005G025300 [exp]	20.00	0.8312
AT5G20280		SPSA1, ATSPS1F	sucrose-phosphate synthase A1,...		Potri.006G064300 [exp]	21.63	0.7299	Pt-SPS.1
AT5G47540			Mo25 family protein (.1)		Potri.016G011300 [exp]	22.80	0.8261
AT4G26270		PFK3	phosphofructokinase 3 (.1)		Potri.006G152600 [exp]	26.83	0.8022
AT5G62580			ARM repeat superfamily protein...		Potri.012G074400 [exp]	29.46	0.8078

Compare expression of checked genes

Potri.004G074700 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.