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 AT1G55630 608 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G60050 592 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G60040 184 / 2e-50 F-box family protein (.1) AT1G74900 158 / 3e-43 OTP43 organelle transcript processing defect 43, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G48810 156 / 4e-41 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G16010 154 / 1e-40 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT4G01400 149 / 1e-39 unknown protein AT1G18900 150 / 9e-39 Pentatricopeptide repeat (PPR) superfamily protein (.1), Pentatricopeptide repeat (PPR) superfamily protein (.2), Pentatricopeptide repeat (PPR) superfamily protein (.3) AT1G09900 146 / 7e-38 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G62680 144 / 1e-37 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.012G141400 [exp] 552 / 0 AT1G55630 391 / 7e-134 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G180000 [exp] 176 / 2e-48 AT3G16010 950 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.014G105900 [exp] 159 / 4e-43 AT4G01400 576 / 0.0 unknown protein Potri.017G032100 [exp] 158 / 2e-42 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G130600 [exp] 157 / 2e-42 AT1G12700 330 / 3e-105 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 154 / 2e-40 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.004G074700 [exp] 152 / 3e-40 AT1G62930 481 / 1e-164 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G257300 [exp] 152 / 4e-40 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.010G148700 [exp] 152 / 6e-40 AT3G48810 728 / 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 Lus10027465 [exp] 610 / 0 AT1G55630 569 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10038863 [exp] 578 / 0 AT3G60050 536 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10014983 [exp] 570 / 0 AT3G60050 534 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10039221 [exp] 449 / 7e-156 AT3G60050 452 / 4e-157 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10011464 [exp] 161 / 6e-43 AT3G16010 888 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10002675 [exp] 158 / 6e-42 AT4G01400 570 / 0.0 unknown protein Lus10013283 [exp] 153 / 3e-40 AT1G05670 785 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) Lus10036020 [exp] 152 / 3e-39 AT5G61990 592 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10009201 [exp] 144 / 6e-39 AT1G12700 274 / 3e-86 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10005303 [exp] 150 / 1e-38 AT1G30290 1037 / 0.0 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 CL0020 [poplar] [flax] TPR PF13812 [poplar] [flax] PPR_3 Pentatricopeptide repeat domain
Representative CDS sequence Show only first row Show all	>Potri.015G144100.1 pacid=42775132 polypeptide=Potri.015G144100.1.p locus=Potri.015G144100 ID=Potri.015G144100.1.v4.1 annot-version=v4.1 ATGAACTCTGTAGCTTTATTTGGTATGAGGGTAGTTCATAAATTCTTGTGCTTTCCTTCCGTTTCGAGGAGGTTATGTGATTATAGTTTTGATGGTGGTG ATAATAATGATAATGGGTTTCAATATGTTGAAGAACCCTTGAAGAGAATGTATAAAAGTTCAGATTTTGATTCTTTTCAGAGTGAAAGTTGTGTTGAGGA GGAACATTTCTCAGTTAGGCGTAGTTATGTTGAGTGCACAAGGATTGATGCTGACAGAGTTCTTGATATTCTAAGACGAGATGGCCCTGGATTTGATGCG AAAAGGGCTTTAAGTGAGTTAGAGATAAAGGTTTCGTGGCTTCTTGTGAGGGAAGTTTTTACTGGAATTTTGAGGAACATAAATGAGGAGAACAAAACCA GGTGTGCGAAATTGGGTTTTAAGTTTTTCATGTGGTCTGATCAGCAGGGAAATTACAAGCACACGGGGAATTCATACCATTTGTTAATGAAGATATTTGC GGAGTGTGAGGAGTTTAGGGCGATGTGGAAACTAGCTGATGAGATGGTTGAGAAGGGGTTTCACACTACAGCACAGACATTTAATATATTAATTTGTACT TGCGGTGAGGCTGGTTTGGCTATGAATGTTGTGGAAAGGTTCATTAGGTCAAAAACATTCAATTTTAGGCCTTACAAGAACTCCTACAATGCGATTCTGC ATTCACTACTGGTTCTGCATCAGTACAAGTTGATTGAGTGGGTATATCAGCATATGTTGGAGGAGCGTCATTCCCCGGATGTTCTTACTTATAATGTTAT TTTGTATGCAAAATGTAGGTTGGGGAAGGCACCTGAGTTTCATAGATTACTTGATGAAATGCTTAGTTGTGGAATTTTTCCAGATTTTCACACCTATAAC ATCCTTCTACATGTTTATGGAAAGACAAACAATCCAGTTGCTGCACTTGATCTCTTGAATGCTATGAAGGAAGCGAGTATTGATCCTACTGTTCTTCATT ACACTACGTTGATAGATGGACTGGGTCGGGCTGGAAATTTACTTGGCTGCCAGTATTTTTTTGATGAAATGATAAAGGCTGGATGCATACCAGATGTTGT CTGTTACACAGTAATGATCACAGGATATATAATGAATGGTGAGCTTGAAAAGGCACAAGAAATGTTTGAAGACATGATAGTCAACGGCCAATTACCAAAT GTATTTACGTATAATTCTATGATTCGTGGGCTTTGTATGGCTGGGAAGTTTGAGGAAGCATGTTCCATGCTCAAAGAAATGGAATCCAGAGGCTGCAATC CTAATTTTCATGTGTACAGAACCTTGGTAAGAAATTTGCGGAATGCTGGAAAGCTTTCGGAAGCTCATGAAGTGATAAAGCAGATGATAGAGAAAAGCCA ATACAGCCATCTAGTGACCAAGATCAAAAGATATAAGAGATGA
AA sequence Show only first row Show all	>Potri.015G144100.1 pacid=42775132 polypeptide=Potri.015G144100.1.p locus=Potri.015G144100 ID=Potri.015G144100.1.v4.1 annot-version=v4.1 MNSVALFGMRVVHKFLCFPSVSRRLCDYSFDGGDNNDNGFQYVEEPLKRMYKSSDFDSFQSESCVEEEHFSVRRSYVECTRIDADRVLDILRRDGPGFDA KRALSELEIKVSWLLVREVFTGILRNINEENKTRCAKLGFKFFMWSDQQGNYKHTGNSYHLLMKIFAECEEFRAMWKLADEMVEKGFHTTAQTFNILICT CGEAGLAMNVVERFIRSKTFNFRPYKNSYNAILHSLLVLHQYKLIEWVYQHMLEERHSPDVLTYNVILYAKCRLGKAPEFHRLLDEMLSCGIFPDFHTYN ILLHVYGKTNNPVAALDLLNAMKEASIDPTVLHYTTLIDGLGRAGNLLGCQYFFDEMIKAGCIPDVVCYTVMITGYIMNGELEKAQEMFEDMIVNGQLPN VFTYNSMIRGLCMAGKFEEACSMLKEMESRGCNPNFHVYRTLVRNLRNAGKLSEAHEVIKQMIEKSQYSHLVTKIKRYKR

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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
AT1G55630			Pentatricopeptide repeat (PPR)...		Potri.015G144100 [exp]	0	1
AT1G19520		NFD5	NUCLEAR FUSION DEFECTIVE 5, pe...		Potri.005G228200 [exp]	5.65	0.6312
AT3G04470			Ankyrin repeat family protein ...		Potri.019G019700 [exp]	22.58	0.6039
AT5G50990			Tetratricopeptide repeat (TPR)...		Potri.012G109300 [exp]	27.65	0.5989
AT4G34040			RING/U-box superfamily protein...		Potri.001G304900 [exp]	30.06	0.5965
AT1G48170			unknown protein		Potri.008G099700 [exp]	39.93	0.5667
AT1G63930		ROH1	from the Czech 'roh' meaning '...		Potri.003G132100 [exp]	55.30	0.4563
AT1G01500			Erythronate-4-phosphate dehydr...		Potri.002G163300 [exp]	74.31	0.5406
AT5G49980		AFB5	auxin F-box protein 5 (.1)		Potri.002G102700 [exp]	75.65	0.5313
AT2G29410		ATMTPB1, MTPB1	metal tolerance protein B1 (.1...		Potri.001G245800 [exp]	113.67	0.4925
AT3G07360		ATPUB9	ARABIDOPSIS THALIANA PLANT U-B...		Potri.013G052200 [exp]	122.39	0.4744

Compare expression of checked genes

Potri.015G144100 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.