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 AT1G52620 810 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G39710 292 / 7e-87 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G01110 268 / 2e-78 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G74580 268 / 4e-78 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G65560 270 / 1e-77 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G59900 268 / 4e-77 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 254 / 6e-74 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12775 252 / 3e-73 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G05670 253 / 6e-73 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.2) AT1G63080 248 / 6e-72 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.005G046000 [exp] 287 / 9e-86 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.001G276500 [exp] 288 / 1e-85 AT5G01110 863 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.009G069600 [exp] 287 / 2e-85 AT4G28010 661 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.014G040200 [exp] 281 / 1e-81 AT1G19290 883 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.015G105400 [exp] 280 / 1e-80 AT5G61990 773 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.010G234500 [exp] 271 / 3e-79 AT1G74580 1034 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G032600 [exp] 268 / 3e-79 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G111600 [exp] 269 / 6e-79 AT3G09060 860 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G236800 [exp] 271 / 4e-78 AT5G59900 1071 / 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 Lus10036090 [exp] 976 / 0 AT1G52620 755 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10026791 [exp] 966 / 0 AT1G52620 741 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027916 [exp] 284 / 6e-84 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027914 [exp] 281 / 6e-83 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10036020 [exp] 281 / 4e-82 AT5G61990 592 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10038974 [exp] 277 / 2e-81 AT1G74580 911 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012068 [exp] 281 / 6e-81 AT5G39710 1028 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10026558 [exp] 276 / 7e-80 AT5G65560 881 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10007468 [exp] 269 / 1e-78 AT5G01110 808 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014247 [exp] 265 / 2e-78 AT1G62930 340 / 3e-109 RNA processing factor 3, 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
Representative CDS sequence Show only first row Show all	>Potri.001G139200.1 pacid=42791527 polypeptide=Potri.001G139200.1.p locus=Potri.001G139200 ID=Potri.001G139200.1.v4.1 annot-version=v4.1 ATGTCTAAAATTAACACGCTTCTTTCTCGCATCAAACCCCTCCATCACCCAAAACCCATTTCTCCTTCTCCCTTTCCCTTCCCTCCCCACATTAAAATTC TTGTCAAAGACATCATCCAAATCCTCAGTACCCATCCACACTGGGAAAAATCTCTCGAAACCCGTTTTTCAGACTGCGAAACTCCAGTTTCGGGGATTGC CCACTTTGTGTTTGATCGAATTCGCGACCCAGGATTGGGTCTGAAGCTCTTCGAATGGGCCTCGAAACGATCGGATTTTAACGATTTGCTTGATGGGTTT TCTTGTTCTTCACTTTTGAAGCTTTTAGCGAGGTGTAGAGTGTTTGTGGAGGTTGAGAATTTGTTAGAGACTATGAAGTGTAAAGATTTGGCTCCCACCC GCGAAGCATTGAGTTTTGTTATTGGCGCGTATGTGGATTCTGGGTTGGTTAATAGAGCTCTTGAGCTGTACCATATTGCTTATGATATTCATAATTACCT GCCTGATGTCATTGCTTGCAATGCGTTGCTCAATGCCCTTATTCAACAGAAAAAAGTTGAGATTGCCCGTAAAGTGTACGAAGAAATGGTTAAAAGGGAT GGATGTTGGGATAACTATAGTGTTTGTATAATGGTGAGGGGGTTGTGTAAAGAAAGGAAGGTTGAGGAGGGTAGAAAGTTGATTAATGATAGGTGGGGAA AGGGGTGCATTCCGAATATTGTATTCTATAATACTCTCGTTGATGGGTATTGGAAGAGAGGTGATGTTGAAAGAGCTAATGGCCTTTTCAAGGAGTTGAA AATGAAGGGGTTTTTACCTACAACTGAAACTTATGGGATTATGATTAATGGGCTCTGTAAAAAATGCAATTTCAAGGCAGTTGATGGGCTTTTGGTGGAA ATGAAGGAGAGGGGTGTGGATGTGAATGTTCAAGTTTATAACAGTATCGTTGATGCTCAAATTAAGCATGGTTGTAAGATTGAAGTGGGGAAGACTTTAA GATGGATTACTGAGAATGGCTGTGAGCCTGATATCACAACCTATAATACTTTGATTAGTGGTTCATGTAGGGATGGGAAAGTTCATGAAGCTGAAGAACT TCTAGAACATGCAATAAAGAGGGGGTTGTCGCCAAATAAACTTAGTTATACTCCTCTTATACATGTCTATTGCAAACAAGGGAAATGTCTTAGGGCCTTT GATTTATTCATTGGGATGACAGAGAAAGGGCATCCACTGGATTTGGTTGCTTATGGAGCTCTTGTTCATGGCCTGGTTGCCGCCGGGGAGGTTGATGTTG CATTGACAGTTCGAGATAAAATGGTGGAGAGAGGAGTGTTACCTGATGCAAATGTTTACAATGTTTTAATGAATGGACTTTGCAAGAAGGGGAGGCTTTC TGCTGCCAAGCTCTTGCTTGTGGAGATGCTTCACCAAAATTTATCCCTCGATGCATTTGTTAGTGCCACTCTGGTTGATGGATTTATAAGACATGGCAAA CTCGATGAGGCCAAAAAGCTCTTTGAGCTCACAATTGCGAAGGGTATGGATCCTGGTGTTGTGGGCTACAATGCCATGATTAAGGGTTATTGCAAATTTG GAATGATGAATGATGCACTGACGTGTGTCCAAAGAATGAAAGATGGGGATCATTCGCCTGATGAGTTCACTTATTCAACAATCATAGATGGGTATGTAAA GCAGAACGACTTGCATAATGCACTGAAGTTGTTTGGACAGATGGTGAAACAAAAATGCAAGCCAAATGTGGTAACTTACACGTCTCTAATTAATGGATTT TGTCGCACTGGAGACTCCAGCAGGGCTGAAAAGACATTTGAAGAGATGCGATCTTCTGGATTGAAGCCTAATGTTGTTACATACACTATTCTTATTGGGT GCTTCTGTAAAGAGGGAAAAATTTCAAAAGCTTGCTCCTTTTTTGAACTTATGTTGCTGAACAGGTGCATTCCTAATGATGTTACTTTCAACTATCTGAT AAATGGCCTAACGAACAATGTGGCAACTGCAGTTTCTAACAAAGCAAATGAGTCTCTAGAGATTAAAGCTTCTCTGATGATGGATTTTTTTAGAACGATG ATTTCAGATGGATGGGAGCAGAGGGTTGCTGCTTATAATTCTGTGCTCATTTGCCTTTGCCATCATAAAATGGTTAATGCTGCTTTGCAGCTTCGTGATA AAATGACAGGTAAGGGGATCTTTCCAGATCCTGTTTCATTCGCTGCCCTGGTATATGGTCTTTGCTTGGAAGGGAGATCGAAGGAGTGGAAGAATACCAT CTCCTGTAAATTGAATGAATGGGAACTCCAGATTGCTGTTAAGTACTCACAGAAATTGAACCCGTTTCTACCCAAAGGACTAACTTCTGAGGCTTCGAAG GTCTTCCACACGTTGCTTGAGGGTGTCAAGCTCCATATCCAAGAAAATAATTTAATTGTCTCAGCAAGAAACAGGAGCTGA
AA sequence Show only first row Show all	>Potri.001G139200.1 pacid=42791527 polypeptide=Potri.001G139200.1.p locus=Potri.001G139200 ID=Potri.001G139200.1.v4.1 annot-version=v4.1 MSKINTLLSRIKPLHHPKPISPSPFPFPPHIKILVKDIIQILSTHPHWEKSLETRFSDCETPVSGIAHFVFDRIRDPGLGLKLFEWASKRSDFNDLLDGF SCSSLLKLLARCRVFVEVENLLETMKCKDLAPTREALSFVIGAYVDSGLVNRALELYHIAYDIHNYLPDVIACNALLNALIQQKKVEIARKVYEEMVKRD GCWDNYSVCIMVRGLCKERKVEEGRKLINDRWGKGCIPNIVFYNTLVDGYWKRGDVERANGLFKELKMKGFLPTTETYGIMINGLCKKCNFKAVDGLLVE MKERGVDVNVQVYNSIVDAQIKHGCKIEVGKTLRWITENGCEPDITTYNTLISGSCRDGKVHEAEELLEHAIKRGLSPNKLSYTPLIHVYCKQGKCLRAF DLFIGMTEKGHPLDLVAYGALVHGLVAAGEVDVALTVRDKMVERGVLPDANVYNVLMNGLCKKGRLSAAKLLLVEMLHQNLSLDAFVSATLVDGFIRHGK LDEAKKLFELTIAKGMDPGVVGYNAMIKGYCKFGMMNDALTCVQRMKDGDHSPDEFTYSTIIDGYVKQNDLHNALKLFGQMVKQKCKPNVVTYTSLINGF CRTGDSSRAEKTFEEMRSSGLKPNVVTYTILIGCFCKEGKISKACSFFELMLLNRCIPNDVTFNYLINGLTNNVATAVSNKANESLEIKASLMMDFFRTM ISDGWEQRVAAYNSVLICLCHHKMVNAALQLRDKMTGKGIFPDPVSFAALVYGLCLEGRSKEWKNTISCKLNEWELQIAVKYSQKLNPFLPKGLTSEASK VFHTLLEGVKLHIQENNLIVSARNRS

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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
AT1G52620			Pentatricopeptide repeat (PPR)...		Potri.001G139200 [exp]	0	1
AT3G19510	HD	HAT3.1	Homeodomain-like protein with ...		Potri.009G093000 [exp]	5.74	0.8279
AT4G01570			Tetratricopeptide repeat (TPR)...		Potri.002G183100 [exp]	6.48	0.8698
AT5G55600			agenet domain-containing prote...		Potri.006G017400 [exp]	7.74	0.8549
AT5G46920			Intron maturase, type II famil...		Potri.003G086801 [exp]	8.36	0.8757
AT5G18750			DNAJ heat shock N-terminal dom...		Potri.010G018800 [exp]	8.83	0.8516
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Potri.005G038400 [exp]	11.22	0.8486
AT3G57660		NRPA1	nuclear RNA polymerase A1 (.1)		Potri.006G055300 [exp]	12.12	0.8652
AT1G26500			Pentatricopeptide repeat (PPR)...		Potri.016G086100 [exp]	15.55	0.8459
AT5G22450			unknown protein		Potri.010G238400 [exp]	15.65	0.8665
AT5G46460			Pentatricopeptide repeat (PPR)...		Potri.001G354400 [exp]	18.97	0.8656

Compare expression of checked genes

Potri.001G139200 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.