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 AT4G18840 382 / 6e-127 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT5G66520 379 / 5e-125 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT2G42920 360 / 2e-118 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT2G29760 361 / 1e-116 OTP81 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G48910 347 / 2e-112 LPA66 LOW PSII ACCUMULATION 66, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G06540 338 / 3e-109 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G29230 337 / 1e-108 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G62890 332 / 2e-107 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G40405 321 / 2e-102 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G56310 318 / 2e-102 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.005G202600 [exp] 396 / 8e-133 AT2G42920 660 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.009G044700 [exp] 372 / 8e-121 AT2G29760 1013 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.003G031600 [exp] 367 / 1e-118 AT3G15930 784 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G012600 [exp] 362 / 1e-117 AT2G29760 540 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.003G088600 [exp] 355 / 3e-115 AT1G31430 690 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.005G035900 [exp] 354 / 6e-115 AT1G74630 884 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.008G106500 [exp] 350 / 7e-114 AT2G29760 422 / 4e-139 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G065500 [exp] 348 / 4e-113 AT5G06540 828 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.002G258766 [exp] 346 / 6e-113 AT1G06150 705 / 0.0 EMBRYO DEFECTIVE 1444, basic helix-loop-helix (bHLH) DNA-binding superfamily protein (.1), basic helix-loop-helix (bHLH) DNA-binding superfamily protein (.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10007341 [exp] 387 / 8e-129 AT2G42920 610 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10014298 [exp] 367 / 8e-120 AT5G66520 748 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10026006 [exp] 357 / 3e-116 AT5G66520 746 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10030053 [exp] 358 / 1e-115 AT1G08070 884 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10018223 [exp] 358 / 2e-115 AT2G29760 931 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10040680 [exp] 355 / 4e-114 AT2G29760 926 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 81, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027389 [exp] 347 / 1e-113 AT5G66520 393 / 7e-131 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10033026 [exp] 342 / 5e-109 AT1G08070 921 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10029344 [exp] 337 / 2e-108 AT5G06540 803 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10002288 [exp] 333 / 3e-107 AT1G31430 689 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF01535 [poplar] [flax] PPR PPR repeat
Representative CDS sequence Show only first row Show all	>Potri.001G108500.1 pacid=42791700 polypeptide=Potri.001G108500.1.p locus=Potri.001G108500 ID=Potri.001G108500.1.v4.1 annot-version=v4.1 ATGTCTGCTCTGCCGCCTTCTCTTCTGCCCACAAAACCCACCAAAAACCACAATCAATTCCAGTCATTCTCTCTCAAATCATGCCTTTCCCTTTTAGAAA TCTGCAAGTTTACCACCGAGTTTGCTCAACTCCATGCCCGACTCACTAAACTTGGCTTCATTAAAAACCCACTGGCCCTCACTAGACTCTTGTGCTATTC ATCAATCTCTCAATATGCAAACATCAACTATGCTCAGTCAATCTTTAATTTTGATAAAAACCCAAATACATTTGCTTATAATGTAATGATTAGAGGCTAC GCCCAGAGAGAAAAACCCGAAAATGTGCTTTCTTTATTTTATAGCATGCTTTGTAATGCCAATTCTGGGCAAAATAAGCTAACTTTCCCTTTTGTTTTGA AAGCATGCTCTCAGGTTAGAGCAATTGAAGAGGGTAAACAAGTTCATGGGCTGGTTTTTAAACATGGGTTGAGTGAAGATCTTTTTGTGCAAAATAGTTT GATTAGCATGTACTCATCCTGTGGGTTAATTGGCTTTGCTTGTCAAGTGTTTAATAAAATAGATGACCCGGATGTTGTTTCATGGAATTCGATGATCAGT GGGTTGGTTGATTTGGGTTTTGTCGAGGAGGGGAAGCAAATGTTCGATAGAATGTCAAAGAGGAGTTTAGTTACATGGAATTGTTTGATTGATGGGTATG TTAAGGCTGGATTGTTGATGGAGGCTAGAGAGTTGTTTGATCAAATGGTGGGAAAGAATTCGGATGCGAAAGGATTTTTTGATAAGATGCCGTGGGAAAT GAAGGATGTAATCACTTTTAATTTGATGATTGATGGGTTTACCATGGTAAGTGTGCTTACGGCTTGTTCTTATTTGGGGGCTTTGGAGCAAGGTGAATGG ATGCAAGCTCACATAGAGAAAAATGGGATTGATGTGGATTCTGTTCTGGGTACCGCTTTGGTTGAGATGTTTGCGAAGTGTGGAAGCATTGAGAGGGCTC TTTCAGTGTTCAAAAGTATAGAGGAGAGAGATGTGGGGGCATGGAACTCAATAATTCATAAACTAGCTGCTCATGGTCATGGCCAAGAGGCTTTCACAAT TTTTTCAGACATGTTGAGGTCAAATACTCTACCGGATGGCATAACTTTTCTCGGCTTATTAAGTGTATGCCGCCATTTGGGGCTCGTTGATGAAGGAAAA AGATTTTTTCAACTCATGAGTGAAGAATATGGCCTAGTGCCAAAGGTTGAGCATTATGGTTGTATGGTGGATCTTCTCTGTCATGCAGATCTTTTAGAGG AAGCGAGGGACTTGATAGACTCTTCACATGCGTCACAGATGAAATCCAGTGTTCCCATGTGGGGTGCTCTTCTTGGAGCTTCATGTCAGCTAAAAAATAT AGTGATGGGTGAATATGCTGCCAAACATCTTTTGCAATTAGACCCTTTTAATGGCAGCTGTTACACAGTTTTATCCAACTTGTACTCAGCTGCAGGCTTG TATGAGAAAGCCATTGAAGTAAGGAATGAGATGAAGAAACAAGGACTAGAGAAGATCCCAGGCAGTAGTTCAATGGAAATAGATGGTCTAGTTCTTGATT TTTAG
AA sequence Show only first row Show all	>Potri.001G108500.1 pacid=42791700 polypeptide=Potri.001G108500.1.p locus=Potri.001G108500 ID=Potri.001G108500.1.v4.1 annot-version=v4.1 MSALPPSLLPTKPTKNHNQFQSFSLKSCLSLLEICKFTTEFAQLHARLTKLGFIKNPLALTRLLCYSSISQYANINYAQSIFNFDKNPNTFAYNVMIRGY AQREKPENVLSLFYSMLCNANSGQNKLTFPFVLKACSQVRAIEEGKQVHGLVFKHGLSEDLFVQNSLISMYSSCGLIGFACQVFNKIDDPDVVSWNSMIS GLVDLGFVEEGKQMFDRMSKRSLVTWNCLIDGYVKAGLLMEARELFDQMVGKNSDAKGFFDKMPWEMKDVITFNLMIDGFTMVSVLTACSYLGALEQGEW MQAHIEKNGIDVDSVLGTALVEMFAKCGSIERALSVFKSIEERDVGAWNSIIHKLAAHGHGQEAFTIFSDMLRSNTLPDGITFLGLLSVCRHLGLVDEGK RFFQLMSEEYGLVPKVEHYGCMVDLLCHADLLEEARDLIDSSHASQMKSSVPMWGALLGASCQLKNIVMGEYAAKHLLQLDPFNGSCYTVLSNLYSAAGL YEKAIEVRNEMKKQGLEKIPGSSSMEIDGLVLDF

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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
AT4G18840			Pentatricopeptide repeat (PPR-...		Potri.001G108500 [exp]	0	1
					Potri.012G066225 [exp]	5.38	0.8641
AT1G73240			unknown protein		Potri.003G213050 [exp]	6.48	0.8606
AT1G65450			HXXXD-type acyl-transferase fa...		Potri.002G244600 [exp]	17.14	0.8124
AT5G05800			unknown protein		Potri.001G243108 [exp]	18.65	0.8605
AT1G04880	ARID		HMG (high mobility group) box ...		Potri.001G315200 [exp]	19.36	0.8283
AT1G58470		XF41, ATRBP1	RNA-binding protein 1 (.1)		Potri.014G012700 [exp]	20.29	0.8581
AT1G10930		ATSGS1, RECQL4A...	DNA helicase (RECQl4A) (.1)		Potri.003G015800 [exp]	23.02	0.8579
AT5G09380			RNA polymerase III RPC4 (.1)		Potri.005G126700 [exp]	24.65	0.8361
AT5G17770		CBR1, ATCBR	NADH:cytochrome B5 reductase 1...		Potri.009G157000 [exp]	26.83	0.8545
AT3G09280			unknown protein		Potri.004G029700 [exp]	26.90	0.7616

Compare expression of checked genes

Potri.001G108500 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.