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 AT3G02490 623 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G15980 566 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G48250 280 / 2e-85 BIR6 Buthionine sulfoximine-insensitive roots 6, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT2G37230 76 / 5e-14 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G71060 75 / 5e-14 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G53700 75 / 1e-13 MEE40 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G18390 73 / 3e-13 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G60050 71 / 1e-12 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G22960 71 / 2e-12 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G06400 71 / 2e-12 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.017G108100 [exp] 1080 / 0 AT3G02490 604 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.015G084800 [exp] 328 / 2e-103 AT3G48250 715 / 0.0 Buthionine sulfoximine-insensitive roots 6, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G050240 [exp] 89 / 3e-18 AT1G12700 465 / 1e-155 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050400 [exp] 86 / 2e-17 AT1G12700 504 / 3e-171 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050180 [exp] 86 / 3e-17 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.019G025700 [exp] 81 / 9e-16 AT5G18390 637 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G150100 [exp] 79 / 4e-15 AT1G62930 442 / 8e-149 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.001G180000 [exp] 78 / 8e-15 AT3G16010 950 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.010G077400 [exp] 75 / 7e-14 AT2G37230 1050 / 0.0 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 Lus10032092 [exp] 684 / 0 AT3G02490 562 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10019474 [exp] 329 / 7e-104 AT3G48250 660 / 0.0 Buthionine sulfoximine-insensitive roots 6, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10043322 [exp] 323 / 3e-102 AT3G48250 660 / 0.0 Buthionine sulfoximine-insensitive roots 6, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10003575 [exp] 85 / 4e-17 AT5G18390 627 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10032787 [exp] 84 / 1e-16 AT5G18390 625 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10034721 [exp] 81 / 1e-15 AT2G37230 1041 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10043417 [exp] 79 / 8e-15 AT3G06920 1358 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10021645 [exp] 78 / 1e-14 AT2G37230 1041 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10011464 [exp] 77 / 2e-14 AT3G16010 888 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10014983 [exp] 76 / 5e-14 AT3G60050 534 / 0.0 Pentatricopeptide repeat (PPR) 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.004G108000.1 pacid=42795294 polypeptide=Potri.004G108000.1.p locus=Potri.004G108000 ID=Potri.004G108000.1.v4.1 annot-version=v4.1 ATGAGACACTCATGGAGAGTTCTTCTCTACCGAAAGTATCCGCTATCATCTCTCAAAATTTCCAATCATTTCCAGGTACTACAGCAACACTCTCCTTCTC TACTTCGCTCTCTGTCTCCTTCACTTCACACACTTGCACTACAAAACTCTCATTTCTCTGAAACCCTACAAAAACCCAATTTTTATAACAAAACCGCATT ATTTGCTCGTAATTTCTCATCTGAAGCATCATTAGTTGAGCCCACAAAAGACCCGGATCATGTTTTGCTTGTTTGTGACGCTTTTACCAAGTTTGATGAA TTTGATGATATTAGTAAAGAATTGGAATTGAATAGTGTTGTTATTAGTCATGACTTGGTTTTGAAAGTTTTGAAGTCATTGGAATCAAAACCGGAAGTGG CCAAGAGGTTTTTTGATTGGGTTTTGGAGAAGGATAGTGGGAGATTGAGCTCTAAAAGTTATAACTGGATGTTAGGGATTTTGGGGGTTAATGGTTTGGT TGTGGAATTTTGGGATTTAGTTGACAAAATGAAGATAAAGGGTCATGGCGTGTCAGGGGTCACGCGCGATAGAGTGCAGGAGAAGTTTGAGAAAGAAGGG TTAAATGATGATTTAGAGAAGTTAAAAGGGGTTTTTGCAAAGGGATCAGTGGATAACTCGGTGGAAAAGATTGGTTTGAGAGTGAGTAGGATTGTTAGGA ATAAGGTTTGGGGAGAGGATGTTGAAGGGGAAATTAAGCATTTGTGTGCAGAGTTTTCGAGTGACTTAGTGAAGATTGTGTTGGAGCATTTAGTGATGGA GCCAGTGAAAGCATTGATATTTTTTAGGTGGGTTGAGGACAGTGAGTTGTGTAAGCATGATGGAAGGAGTTATAATGCAATGGCTAGGGTTTTGGGGAGG GAGGATTGCATTGACAGATTTTGGAAGGTAATTGATGAAATGAGGAGTAATGGGTTTGAAATGGAGACGGGGACTTTTGATACTGTTTTAGCACGGTTTA TGAGTAGGAAAATGATTAAGGAGGCCATAGACTTATACGAGTTTGCAATGACTGGTGCAAATAAGCCTTCAGCTAAATGTTGCACCTATTTGTTGAGGAA AATAGTCGTTGGTAAACAGTTGGATATGGGTTTGTTTTCAAGAGTTGTGGAAATCTTTACTGGCCACGGGAATGTTTTGACAGATGCTATGCTTGATGCA GTTCTTAAAGCTCTAACTAATGTTGGTAAATTTGGTGAGTGCAATAAGGTTTTAAGAGAAATGAAGGTAGCTGGCTTTGTAGCTAGTGGTAATTTGCAGA GAAAGATTGCATTTGGGCTTACTAGTGCTGGTAAGAATGATGAAGCAAATGAATTTGTGAATCATATGGAATCATCTGGTAGAGATTTGAGTTACAAGGC TTGGGCATCTTTAATTGAAGGGCATTGTGTATCTGGGGATCTTGAAAAAGCATCTGATTGTTTCAAAATAATGGTTGAGAAAAAGGGAGTTTCTGGTGCT GGTTATGCCGTTGAGTTGTTGGTAAATGCATATTGCCTCAAGAACAGAGCGATGGATGCATGCAATCTTTTGTGTGATTATGTCTGTCAAAATCATTTAT GCCCTTGGCAGACTACATACAAAGTATTGATAAGTAAATTACTGGTTCAGGGTGCATTTAAGGATGCCTTAAACCTGTTGGGTTTGATGCAAAGCCATGG CATTCCACCCTTTATAGATCCATTTTTTGAGTTCGTATCAAAGTCTGGAACAGGTGATGATGCCATTGCTTTTATGAATGCTATGACCACTAAGAAGTTT CCATCTATATCTGTTGCTCTTCGTATGTTTAAAGCCTTTTTCAAGGCCAAAAGGCATGGCGAAGCACAAGATTTCTTGTCTAAATGCCCAATTTACATTC GGAACCGTGCTGATGTTTTGAATCTCTTCTGTTCCAAGAAGTTTAGTAACGATACTACTGCTACAGATGTATCCGTGTAG
AA sequence Show only first row Show all	>Potri.004G108000.1 pacid=42795294 polypeptide=Potri.004G108000.1.p locus=Potri.004G108000 ID=Potri.004G108000.1.v4.1 annot-version=v4.1 MRHSWRVLLYRKYPLSSLKISNHFQVLQQHSPSLLRSLSPSLHTLALQNSHFSETLQKPNFYNKTALFARNFSSEASLVEPTKDPDHVLLVCDAFTKFDE FDDISKELELNSVVISHDLVLKVLKSLESKPEVAKRFFDWVLEKDSGRLSSKSYNWMLGILGVNGLVVEFWDLVDKMKIKGHGVSGVTRDRVQEKFEKEG LNDDLEKLKGVFAKGSVDNSVEKIGLRVSRIVRNKVWGEDVEGEIKHLCAEFSSDLVKIVLEHLVMEPVKALIFFRWVEDSELCKHDGRSYNAMARVLGR EDCIDRFWKVIDEMRSNGFEMETGTFDTVLARFMSRKMIKEAIDLYEFAMTGANKPSAKCCTYLLRKIVVGKQLDMGLFSRVVEIFTGHGNVLTDAMLDA VLKALTNVGKFGECNKVLREMKVAGFVASGNLQRKIAFGLTSAGKNDEANEFVNHMESSGRDLSYKAWASLIEGHCVSGDLEKASDCFKIMVEKKGVSGA GYAVELLVNAYCLKNRAMDACNLLCDYVCQNHLCPWQTTYKVLISKLLVQGAFKDALNLLGLMQSHGIPPFIDPFFEFVSKSGTGDDAIAFMNAMTTKKF PSISVALRMFKAFFKAKRHGEAQDFLSKCPIYIRNRADVLNLFCSKKFSNDTTATDVSV

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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
AT3G02490			Pentatricopeptide repeat (PPR)...		Potri.004G108000 [exp]	0	1
AT4G10090		ELP6	elongator protein 6 (.1)		Potri.008G046400 [exp]	3.87	0.7664
AT3G16620		ATTOC120	ARABIDOPSIS THALIANA TRANSLOCO...		Potri.004G171600 [exp]	4.47	0.8219
AT3G55340		PHIP1	phragmoplastin interacting pro...		Potri.010G209701 [exp]	5.19	0.8186
AT3G02760			Class II aaRS and biotin synth...		Potri.019G071400 [exp]	7.74	0.8038
AT3G04340		EMB2458	embryo defective 2458, FtsH ex...		Potri.013G048700 [exp]	9.94	0.7820
AT4G28010			Tetratricopeptide repeat (TPR)...		Potri.009G069600 [exp]	10.00	0.7987
AT3G01160			unknown protein		Potri.005G108800 [exp]	10.95	0.7850
AT4G22350			Ubiquitin C-terminal hydrolase...		Potri.006G010100 [exp]	10.95	0.7426
AT3G47530			Pentatricopeptide repeat (PPR)...		Potri.003G074500 [exp]	11.00	0.8240
AT1G55460	C2H2ZnF		DNA/RNA-binding protein Kin17,...		Potri.008G055300 [exp]	12.24	0.7964

Compare expression of checked genes

Potri.004G108000 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.