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 AT4G04790 706 / 0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G21880 689 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G39710 85 / 1e-16 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G11690 76 / 9e-14 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT5G04810 71 / 3e-12 pentatricopeptide (PPR) repeat-containing protein (.1) AT5G59900 70 / 6e-12 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G12770 66 / 6e-11 MEF22 mitochondrial editing factor 22 (.1) AT3G54980 66 / 8e-11 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G61990 66 / 2e-10 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G01110 65 / 2e-10 Tetratricopeptide repeat (TPR)-like 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.011G133100 [exp] 729 / 0 AT4G04790 380 / 5e-122 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G147700 [exp] 79 / 1e-14 AT2G15630 736 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.012G108000 [exp] 73 / 4e-13 AT2G34400 640 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.005G038400 [exp] 73 / 6e-13 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.014G090400 [exp] 73 / 7e-13 AT5G28460 637 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G236800 [exp] 73 / 9e-13 AT5G59900 1071 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.009G105600 [exp] 70 / 6e-12 AT5G39710 1022 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G053100 [exp] 69 / 8e-12 AT2G33680 388 / 3e-124 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.010G168800 [exp] 67 / 2e-11 AT2G02980 860 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 85, 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 Lus10043070 [exp] 783 / 0 AT4G04790 601 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10011164 [exp] 178 / 4e-49 AT4G04790 146 / 1e-38 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10018113 [exp] 78 / 2e-14 AT5G01110 293 / 3e-87 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10040633 [exp] 75 / 1e-13 AT3G61520 586 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10036029 [exp] 73 / 4e-13 AT5G27110 577 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10017684 [exp] 74 / 5e-13 AT4G28010 596 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027914 [exp] 72 / 2e-12 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027916 [exp] 71 / 3e-12 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10026206 [exp] 71 / 5e-12 AT5G14770 717 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10012328 [exp] 70 / 7e-12 AT3G53700 1010 / 0.0 maternal effect embryo arrest 40, 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 CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family
Representative CDS sequence Show only first row Show all	>Potri.001G417400.1 pacid=42793045 polypeptide=Potri.001G417400.1.p locus=Potri.001G417400 ID=Potri.001G417400.1.v4.1 annot-version=v4.1 ATGCCCAAACCCAACAGCCTAAGTAATCTCTTCCGTGCCGCCTTCAAAACCACCAATACCTCCACCGCCTCCGCTGGTGACAGAACTCGCGAAAGCTTCA TCACCAATCTCGAATCCAAAACACACTCTAAAAAACCCCCCAAACCAAAAACTTCCTCTGAGTCCGAAAAACAACCTAAAGCTAAAGCTAAACCTCAACC TCCTCCGTCACCTGCAGTTAATTCTAGCCTTCATGCTCTCAAATTAGAAGACTCCGATTATGAGGAGTCAGTAGCAAACCCGACAATGCAGGACATAACA AAGATTATAAATGATGGTGTGAAAATTAACACACCGGATTCCGAAGAAGCAGAAGATGAGGAACTTGTAAAAAAAGCTTTGGAGATACCATGGCTTTCAA GATTGAAGAATAACAATATAGGGATGCTGCGAAAAGACGTGTCCCGTGAAAGGAAACAAAAATGGGTTTTCACATATAGTCAGGTCAATCATATTAACCG AATTGTTGATACATGTGCCGACAAGCTGGGGACAGATAATGCGATGGAGGTATTTGGAAAATTGGGAAGGGAAACAGGTTTGAAAGAGTTCAATGCATTG ATGAAGAAGTACATCGAGCAATGCAGGGAAACTGATGATGAGAGTGTTGCAATGAAACATATTTCTGCAGTTCTTCAACTTTTTAAATCAATGAAGGAGC AGGGTTTCTCGATAGAAGAGGAAACTTATGGTCCATTTCTTATACTCTTAATTGATAAGGGTATGGTGGAAGAATTCCATTTTTTCTCTGACATTATCAA AGATACAAATCCTAGTAAAAATGCACGATTAGGTTACTACGATATGCTGTTATATATTGGTGTCAATGATGAAGAGAAGATTCAGGAACTTTGCAATTAT ATTTGTATTGATGATGGGGACAATAATATCAGTTTACGAGAAAATTATTTGCTGGCGCTTTGTGAAAGTGACCAGAAGAATTACCTGTTGCAGCTCTTAG AGACTATGGATATAACAAAATTTTCATCGTTGGACCATTTAGCCAGTATCTTTAAATCCTTAGGGAGGCTATCATTGGAGTCCTTTGCAAAGAAGTTCCT TTTGGTGCTCAAAAGTTGTGATTATGGAGCAGAGGATATCTCAACTCTCATCTTTAGTTATGCTACTAGCATCCCAAATTTAGTGGTTGAGGATGTTGTT TCAAAATTCAAAACCTTGCACATGATAATGAAGATGAGTCCTTCTTCAACTTCATATGAGAAGCTCGTCGTATACAATTGTAATTTACTTAAGGTGCATC TTGCTCTTGATATAGTAGACCAAATGTGTAAAGAGGGTTTAACCATATCCATAAACACAATACATTCAATATTGAATGCTAGTGAGGAGAGCTTTGATTT TAATTTGGTTCGGCGAATCTATTCATTGATTTATCACCTGGACTTGACACCAAATAATGAGACATTTAGGAGCATGATAAGTTTAAGTGTGAAAATGAAA GATTTTGAAGGTGCATATGGTCTGCTCGATGATTTGAAGAAATTGAATTTGGCACCAACGGCCAGCATGTATAATGCTATAATGGGTGGATATTTTCGAG AGAAAAACATTAGGGGCGCGTTGATGGTTCTCAAGCAAATGAAACTTGCAGATGTGAAACCAGATTCGTCATCTTACAGTTATTTGATAAGCAACTGCAA CAATGAAGAGGAAATTATCAAGTATTATGAAGAAATGAAGGTTGCTGGAATTCAAGTATCGAAGCAAATTTTTATGGCGCTTATTAATGCATACGCAACA TGTGGGCAATTTGAGAAGGCCAAACAGGTACTCCTAGACAAAGAGTTTCCAATTAAACACTTAAACGAAATTAGAAGTGTGCTCGTCTCAGCTCTTGCTT CACATGGACAAATGACTGATGCCCTTAATTTGTATGAAGAAATGAAGCAAGCTGGATCCAATCTGGAACCCAAAGCTGTCATAAGCCTTATAGAGCACGT TGATTCTGAAGGAGAACAAAGCAGACTGCTTAAACTACTGGAAGAATTGGATGATCATAATTATTGGGTGGATGGCTGTTTCAGAGTTATCCTATATTGT ATTCGCAATAAGGATTTAAGGTCTGCTGTGGATTTGCTCAAGCAACTCAAAGATAGGTTCTCTGATGATGAATTGGCAATGGAAGTTCTGTTTGATGAGG TTTTCTCACAAGTTGCTGAGACAGAGCCTGCAAATGTGCGGATAGGCATGGACTTGCTTCAAGCCATCAAGGATGAGCTCGGTGCTTCACCTTCACGAAA GTGTCTTGATTTTCTCCTTACTGCTTGTGTTAATGCCAAGGATTTGGGTAATTCTCTCTTGGTTTGGAAAGAATATCAGGCAGCTGGGCTTCCTTACAAT GTTACGAGTTATTTAAGGATGTACCAGGCCCTTTTGGCATCTGGAGGCCACGTATCTGCAAAGGTTATGCTAAATAAAATTCCAAAAGATGATCCCCATG TTCGCATTGTAATCCAAGAATGTCAAAGAACTTATATTGGGCACACTTATATAAAGGGAGAAAAGAAAAGAATCAAGGAAGGAAGAAGGAAAAGGAGTGT CTGA
AA sequence Show only first row Show all	>Potri.001G417400.1 pacid=42793045 polypeptide=Potri.001G417400.1.p locus=Potri.001G417400 ID=Potri.001G417400.1.v4.1 annot-version=v4.1 MPKPNSLSNLFRAAFKTTNTSTASAGDRTRESFITNLESKTHSKKPPKPKTSSESEKQPKAKAKPQPPPSPAVNSSLHALKLEDSDYEESVANPTMQDIT KIINDGVKINTPDSEEAEDEELVKKALEIPWLSRLKNNNIGMLRKDVSRERKQKWVFTYSQVNHINRIVDTCADKLGTDNAMEVFGKLGRETGLKEFNAL MKKYIEQCRETDDESVAMKHISAVLQLFKSMKEQGFSIEEETYGPFLILLIDKGMVEEFHFFSDIIKDTNPSKNARLGYYDMLLYIGVNDEEKIQELCNY ICIDDGDNNISLRENYLLALCESDQKNYLLQLLETMDITKFSSLDHLASIFKSLGRLSLESFAKKFLLVLKSCDYGAEDISTLIFSYATSIPNLVVEDVV SKFKTLHMIMKMSPSSTSYEKLVVYNCNLLKVHLALDIVDQMCKEGLTISINTIHSILNASEESFDFNLVRRIYSLIYHLDLTPNNETFRSMISLSVKMK DFEGAYGLLDDLKKLNLAPTASMYNAIMGGYFREKNIRGALMVLKQMKLADVKPDSSSYSYLISNCNNEEEIIKYYEEMKVAGIQVSKQIFMALINAYAT CGQFEKAKQVLLDKEFPIKHLNEIRSVLVSALASHGQMTDALNLYEEMKQAGSNLEPKAVISLIEHVDSEGEQSRLLKLLEELDDHNYWVDGCFRVILYC IRNKDLRSAVDLLKQLKDRFSDDELAMEVLFDEVFSQVAETEPANVRIGMDLLQAIKDELGASPSRKCLDFLLTACVNAKDLGNSLLVWKEYQAAGLPYN VTSYLRMYQALLASGGHVSAKVMLNKIPKDDPHVRIVIQECQRTYIGHTYIKGEKKRIKEGRRKRSV

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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
AT4G04790			Tetratricopeptide repeat (TPR)...		Potri.001G417400 [exp]	0	1
AT3G18270		CYP77A5P	"cytochrome P450, family 77, s...		Potri.015G044400 [exp]	5.47	0.7057
AT2G34357			ARM repeat superfamily protein...		Potri.006G137900 [exp]	5.83	0.7214
AT2G03667			Asparagine synthase family pro...		Potri.010G157700 [exp]	10.90	0.6887
AT4G32420			Cyclophilin-like peptidyl-prol...		Potri.018G030300 [exp]	13.49	0.6635
AT1G72560		PSD	PAUSED, ARM repeat superfamily...		Potri.003G066200 [exp]	13.85	0.7152	Pt-PSD.2
AT3G61415		ASK21	SKP1-like 21 (.1.2)		Potri.014G085400 [exp]	27.05	0.5893
AT4G32720		ATLA1	La protein 1 (.1.2)		Potri.018G037900 [exp]	27.92	0.6148
AT1G67960		POD1	POLLEN DEFECTIVE IN GUIDANCE 1...		Potri.010G103400 [exp]	30.39	0.6176
AT3G06530			ARM repeat superfamily protein...		Potri.003G151500 [exp]	32.24	0.6836
AT5G04770		CAT6, ATCAT6	ARABIDOPSIS THALIANA CATIONIC ...		Potri.001G150700 [exp]	34.08	0.6607	PtrCAT7

Compare expression of checked genes

Potri.001G417400 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.