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 491 / 2e-166 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G62930 468 / 7e-159 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 468 / 9e-159 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 457 / 2e-154 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62670 453 / 5e-153 RPF2 rna processing factor 2 (.1) AT1G12300 453 / 9e-153 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62590 453 / 1e-152 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G63080 451 / 2e-152 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62910 451 / 4e-152 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63330 444 / 2e-150 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.006G257300 [exp] 957 / 0 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242500 [exp] 943 / 0 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 937 / 0 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G271200 [exp] 927 / 0 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074700 [exp] 919 / 0 AT1G62930 481 / 1e-164 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074500 [exp] 917 / 0 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242200 [exp] 881 / 0 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G149800 [exp] 728 / 0 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.018G038300 [exp] 676 / 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] 525 / 8e-180 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014245 [exp] 516 / 6e-178 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10042768 [exp] 517 / 5e-177 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 499 / 3e-171 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 484 / 2e-165 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 466 / 2e-158 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 449 / 7e-152 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 404 / 4e-135 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10014247 [exp] 382 / 8e-126 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003427 [exp] 355 / 6e-118 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 PF13041 [poplar] [flax] PPR_2 PPR repeat family
Representative CDS sequence Show only first row Show all	>Potri.019G021200.3 pacid=42773226 polypeptide=Potri.019G021200.3.p locus=Potri.019G021200 ID=Potri.019G021200.3.v4.1 annot-version=v4.1 ATGTCGGCGGCGGCGAGACGTCGAGGTTCAGAAGCCTTTTTTATTCAGCGATGCCAAATGAAAATAATGGGTATGATTCTTCTATCTCCAATCACTTCAT CACTCTCGTCTACCAACCACTACAACTCCATTTCTTCTTTTACCAGTAGCAGTAGCAGTAGAAGTAGATATAAACACAAAAATGATGATGCTTCTTCTTC TTTTAGAAACATTGATGATGCCCTTGCTTCTTTCAATCACATGCTTCATAGGAAACCCCTGCCTTGTATCATCCAATTCAACAAATTATTGTCTGCAATT GTCAGAATGAGACAGTACTACGATGCTGTGATTTCCCTTTCCAAACAAATGGAATTAGCTGGGCTCTCTCCTAATACTTGTACGCTTAATATCCTGATCA ATTGCTTCTGCCTGATGCAACATGTTGATCTGGGGTTCTCTGTCTTGGCCAAAGTCATTAAACTTGGTCTTCAACCCACTATTATCACCTTTACCACCTT AATCAATGGGCTCTGTAAAGCGGGTGAATTTGCCCAAGCCCTGGAATTATTTGATGACATGGTAGCAAGAGGGTGTCAACCTGATGTCTACACTTATACT ACGATTATAAATGGCTTATGTAAGATGGGGGAAACTGCGGCGGCTGCTGGATTGATTAAGAAAATGGGAGAGGTAGGCTGCCAGCCGGATGTGGTGACAT ATAGTACACTCATTGACAGTCTTTGCAAAGATAGGCTGGTGAATGAGGCTTTGGATATCTTCTCTTACATGAAGGCTAAAGGCATTTCCCCAACAGTTGT CAGTTACACCTCTTTAATCCAGGGCTTATGCAGTTTCAGCAGATGGAAGGAGGCTTCGACAATGCTAAATGAAATGACGAGTTTGAATATCATGCCAGAT ATTGTCACCTTCAGCCTATTGATTGATATATTCTGTAAAGAAGGCAATGTTTTAGAGGCTCAAGGTGTGTTAAAAACAATGACTGAAATGGGCGTGGAGC CTAACGTTATTACTTACAATTCATTGATGCATGGATATTCCTTGCAGATGGAAGTTGTTGAAGCTAGAAAGCTGTTTGATGTCATGATAACCAGGGGTTG TAAACCAGATGTTTTTAGTTATAGCATCTTAATTAATGGATATTGTATGGTCAAAAGGATAGATGAGGCCAAGCAGCTTTTTAATGAAATGATTCATCAA GGCTTAACTCCGAACACTGTTAGTTACACTACTCTTATTCATGCCTTTTGCCAATTAGGCAAGCTTAGGGAAGCACGAGAGCTTTTCAAGGATATGCACA CTAATGGATACCTCCCAGATTTATGTACTTACTCAGTATTGCTCGAAGGCTTTTGCAAACAAGGGTATCTTGGTAAGGCATTCAGACTATTTCGAGCAAT GCAAGGTACGTACTTGAAGCCTAATCTGGTGATGTATACCATCTTGATTGATTCCATGTGCAAATCTGGGAATCTTAACCATGCAAGGAAACTATTTTCA GAACTCTTTGTCCATGGGTTGCAGCCTGATGTTCAGATATACACAACAATAATAAATGGACTTTGTAAAGAAGGATTGTTAGATGAAGCATTGGAAGCTT TCCGAAAGATGGAGGAGGATGGCTGCCCTCCAAATGAATTTTCTTATAATGTTATTATCAGAGGATTTCTCCAGCACAAGGATGAATCAAGGGCAGTGCA ACTTATTGGTGAAATGAGAGACAAAGGTTTCGTTGCAGATGAGGGAACCACAGCTTGGTAG
AA sequence Show only first row Show all	>Potri.019G021200.3 pacid=42773226 polypeptide=Potri.019G021200.3.p locus=Potri.019G021200 ID=Potri.019G021200.3.v4.1 annot-version=v4.1 MSAAARRRGSEAFFIQRCQMKIMGMILLSPITSSLSSTNHYNSISSFTSSSSSRSRYKHKNDDASSSFRNIDDALASFNHMLHRKPLPCIIQFNKLLSAI VRMRQYYDAVISLSKQMELAGLSPNTCTLNILINCFCLMQHVDLGFSVLAKVIKLGLQPTIITFTTLINGLCKAGEFAQALELFDDMVARGCQPDVYTYT TIINGLCKMGETAAAAGLIKKMGEVGCQPDVVTYSTLIDSLCKDRLVNEALDIFSYMKAKGISPTVVSYTSLIQGLCSFSRWKEASTMLNEMTSLNIMPD IVTFSLLIDIFCKEGNVLEAQGVLKTMTEMGVEPNVITYNSLMHGYSLQMEVVEARKLFDVMITRGCKPDVFSYSILINGYCMVKRIDEAKQLFNEMIHQ GLTPNTVSYTTLIHAFCQLGKLREARELFKDMHTNGYLPDLCTYSVLLEGFCKQGYLGKAFRLFRAMQGTYLKPNLVMYTILIDSMCKSGNLNHARKLFS ELFVHGLQPDVQIYTTIINGLCKEGLLDEALEAFRKMEEDGCPPNEFSYNVIIRGFLQHKDESRAVQLIGEMRDKGFVADEGTTAW

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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.019G021200 [exp]	0	1
AT1G09730			Cysteine proteinases superfami...		Potri.007G115400 [exp]	1.73	0.8544
					Potri.004G102400 [exp]	5.91	0.8119
AT3G27260		GTE8	global transcription factor gr...		Potri.001G335000 [exp]	10.90	0.8094	GTE903
AT1G72650	MYB	TRFL6	TRF-like 6 (.1.2)		Potri.001G170200 [exp]	10.95	0.8161
AT4G06634	C2H2ZnF		zinc finger (C2H2 type) family...		Potri.003G010400 [exp]	10.95	0.7849
AT3G13860		HSP60-3A	heat shock protein 60-3A (.1)		Potri.003G039475 [exp]	11.22	0.8386
AT3G48195			Phox (PX) domain-containing pr...		Potri.012G082500 [exp]	12.40	0.7805
AT5G51920			Pyridoxal phosphate (PLP)-depe...		Potri.001G056400 [exp]	12.64	0.7697
AT1G69380		RRG	RETARDED ROOT GROWTH, Protein ...		Potri.010G162500 [exp]	14.56	0.7485
AT4G13040	AP2_ERF		Integrase-type DNA-binding sup...		Potri.002G246100 [exp]	18.73	0.7808

Compare expression of checked genes

Potri.019G021200 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.