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 AT1G56690 995 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G09410 968 / 0 pentatricopeptide (PPR) repeat-containing protein (.1) AT4G02750 692 / 0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G16835 510 / 4e-173 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G46460 477 / 1e-159 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT2G22070 478 / 7e-159 pentatricopeptide (PPR) repeat-containing protein (.1) AT2G35030 472 / 1e-158 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G18750 471 / 2e-155 DOT4 DEFECTIVELY ORGANIZED TRIBUTARIES 4, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G33990 466 / 5e-154 EMB2758 embryo defective 2758, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G68930 454 / 4e-150 pentatricopeptide (PPR) repeat-containing 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.013G005400 [exp] 1296 / 0 AT1G56690 1018 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.012G048800 [exp] 674 / 0 AT4G02750 1099 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.003G081700 [exp] 510 / 8e-173 AT4G16835 852 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G019900 [exp] 506 / 2e-170 AT4G02750 542 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.001G354400 [exp] 498 / 3e-168 AT5G46460 863 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.010G136200 [exp] 496 / 2e-166 AT1G68930 997 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Potri.007G085500 [exp] 491 / 4e-164 AT2G22070 1088 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Potri.015G018700 [exp] 494 / 6e-164 AT3G49170 1040 / 0.0 embryo defective 2261, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.016G038400 [exp] 479 / 2e-161 AT2G35030 701 / 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 Lus10013149 [exp] 1070 / 0 AT1G56690 946 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10013540 [exp] 640 / 0 AT4G02750 1075 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10030908 [exp] 517 / 2e-168 AT1G68930 928 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10030581 [exp] 508 / 6e-165 AT1G68930 910 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10016425 [exp] 494 / 6e-165 AT2G22070 1002 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10010998 [exp] 487 / 3e-163 AT4G16835 778 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10015256 [exp] 485 / 5e-163 AT5G46460 840 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012971 [exp] 475 / 5e-159 AT1G68930 487 / 5e-163 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10004892 [exp] 478 / 1e-157 AT2G27610 998 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10035164 [exp] 467 / 4e-154 AT3G02010 962 / 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 CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family CL0109 [poplar] [flax] CDA PF14432 [poplar] [flax] DYW_deaminase DYW family of nucleic acid deaminases
Representative CDS sequence Show only first row Show all	>Potri.005G006400.2 pacid=42802448 polypeptide=Potri.005G006400.2.p locus=Potri.005G006400 ID=Potri.005G006400.2.v4.1 annot-version=v4.1 ATGCTGTCCCGTTTGATTCCATATAGAACTTATTCTTCAACCTTTGCTGCAGTATCTCAAATTTCCCATTTTTCACGTCTTGGACAAATACGCATAGCTC GAAAGATATTTGATGATTTGCAAGACAAAACAGTTACTTCTTGGAATGCAATTATGGCTGGTTACTTTCAAAACAAACGGCCGCGTGAAGCCCGAAAACT GTTTGATAAAATGCCTGAGACAAATACGATTTCATGGAATGGATTGGTTTCTGGTTACGTTCAGAATGGAATGATTTCTGAAGCGAGAAAAGTTTTTGAT AAAATGCCCGAGAGGAATGTGGTTTCGTGGACAGCGATGATTAGAGGGTACGTGCAAGAGGGATTGATAGAGGAGGCTGAATTGTTGTTTTGGAGAATGC CGGAAAGGAATGTTGTTTCTTGGACTGTGATGTTAGGTGGTTTGATTGAAGATGGCCGTGTCGATGAGGCTAGACAACTTTTTGATATGATGCCCGTGAA GGATGTTGTTGCTAGCACTAATATGATTGATGGATTGTGTTCAGAAGGAAGGTTGATTGAAGCAAGAGAAATTTTTGATGAGATGCCTCAAAGGAATGTG GTTGCTTGGACTTCTATGATCAGTGGGTACGCAATGAATAGTAAGGTGGATGTGGCTAGGAAGTTGTTTGAAGTGATGCCGGATAAGAATGAGGTGACAT GGACAGCGATGTTGACGGGGTATACGAGGAGTGGTAGGATTAATGAGGCTGCTGAACTTTTTAAGGAAATGCCTGTGAAACCGGTTGCTGCTTGTAATGA GATGATTATGGGGTTTGGGCTGGATGGGGAGGTGGGGAAAGCGAGGTTGGTGTTTGATCAAATGAGGGAGAAGGATGACGGGACATGGAGCACGATGATT AAGATTTATGAGAGAAAAGGATTTGAATTGGAAGCACTTGCTTTATTTAGTTTGATGCAAAGAGAAGGGGTTAGGCCAAGTTTCCCATCCGTCATAAGTG TTCTTTCTGTTTGTGGTAGCTTGGCAAGTCTTGATCATGGTAGACAGGTTCATTCACAGTTGGTAAGATCACAATTCGATATAGACATATACGTCTCTTC AGTTTTGATCACAATGTATATCAAGTGTGGTGATCTTGTGACAGCAAAAAGGGTGTTTGATAGGTTCTCTTCAAAGGATATTGTCATGTGGAATTCCATT ATTGCTGGTTATGCGCAGCATGGTTTTGGAGAGAAAGCTTTAGAAGTTTTCCATGACATGTTCTCTTCAAGCATTGCACCAGATGAAATTACCTTTATTG GAGTTCTGTCAGCATGTAGTTACACTGGGAAGGTTAAAGAAGGGCTTGAAATTTTTGAGTCAATGAAATCAAAGTATCAAGTGGATCCAAAAACTGAACA TTATGCTTGCATGGTTGATCTACTTGGCCGAGCAGGGAAGCTAAATGAGGCAATGAATTTGATTGAAAATATGCCTGTGGAAGCAGATGCTATTGTTTGG GGTGCTTTATTAGGTGCATGCAGAACCCATAAGAATTTGGATTTGGCAGAAATTGCAGCAAAGAAACTTCTACAGCTTGAACCTAACAATGCTGGGCCTT ACATCCTTCTATCAAACCTTTATTCGTCCCAAAGTAGGTGGAAAGATGTTGTAGAATTGAGAAAAACAATGAGGGCGAAGAATTTGAGAAAATCGCCTGG TTGTAGTTGGATTGAAGTGGACAAGAAAGTGCACATATTCAGTGGGGGAGGTAGCACAAGCCATCCTGAGCATGAAATGATATTGAAAAAGTTGGGAAAA TTAGGTGCGTTGTTAAGGGAAGCTGGATATTGTCCTGATGGTAGCTTTGTGATGCATGATGTTGATGAAGAAGAGAAGGTGCACAGCTTACGGGATCACA GTGAGAAATTGGCTGTTGCATATGGACTTCTGAAAGTGCCAGAAGGGATGCCTATTCGAGTGATGAAAAATCTTCGAGTCTGTGGGGATAGCCATTCAAC AATTAAATTAATAGCTCAAGTAACTGGGAGAGAAATAATTTTGAGGGATACTAATAGATTCCATCACTTTAAGGATGGCTTGTGTTCTTGCAGTGACTAA
AA sequence Show only first row Show all	>Potri.005G006400.2 pacid=42802448 polypeptide=Potri.005G006400.2.p locus=Potri.005G006400 ID=Potri.005G006400.2.v4.1 annot-version=v4.1 MLSRLIPYRTYSSTFAAVSQISHFSRLGQIRIARKIFDDLQDKTVTSWNAIMAGYFQNKRPREARKLFDKMPETNTISWNGLVSGYVQNGMISEARKVFD KMPERNVVSWTAMIRGYVQEGLIEEAELLFWRMPERNVVSWTVMLGGLIEDGRVDEARQLFDMMPVKDVVASTNMIDGLCSEGRLIEAREIFDEMPQRNV VAWTSMISGYAMNSKVDVARKLFEVMPDKNEVTWTAMLTGYTRSGRINEAAELFKEMPVKPVAACNEMIMGFGLDGEVGKARLVFDQMREKDDGTWSTMI KIYERKGFELEALALFSLMQREGVRPSFPSVISVLSVCGSLASLDHGRQVHSQLVRSQFDIDIYVSSVLITMYIKCGDLVTAKRVFDRFSSKDIVMWNSI IAGYAQHGFGEKALEVFHDMFSSSIAPDEITFIGVLSACSYTGKVKEGLEIFESMKSKYQVDPKTEHYACMVDLLGRAGKLNEAMNLIENMPVEADAIVW GALLGACRTHKNLDLAEIAAKKLLQLEPNNAGPYILLSNLYSSQSRWKDVVELRKTMRAKNLRKSPGCSWIEVDKKVHIFSGGGSTSHPEHEMILKKLGK LGALLREAGYCPDGSFVMHDVDEEEKVHSLRDHSEKLAVAYGLLKVPEGMPIRVMKNLRVCGDSHSTIKLIAQVTGREIILRDTNRFHHFKDGLCSCSD

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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
AT1G56690			Pentatricopeptide repeat (PPR)...		Potri.005G006400 [exp]	0	1
AT3G61780		EMB1703	embryo defective 1703 (.1)		Potri.014G099100 [exp]	1.00	0.9432
AT3G12770		MEF22	mitochondrial editing factor ...		Potri.010G063900 [exp]	1.41	0.9418
AT5G04050			RNA-directed DNA polymerase (r...		Potri.006G043650 [exp]	3.16	0.9139
AT3G47840			Tetratricopeptide repeat (TPR)...		Potri.007G021700 [exp]	4.00	0.9164
AT5G62370			Tetratricopeptide repeat (TPR)...		Potri.004G200900 [exp]	4.24	0.9255
AT3G09040			Pentatricopeptide repeat (PPR)...		Potri.005G137900 [exp]	4.24	0.9101
AT1G74350			Intron maturase, type II famil...		Potri.005G063750 [exp]	4.89	0.9235
AT1G32330	HSF	ATHSFA1D	heat shock transcription facto...		Potri.001G138900 [exp]	5.09	0.9121
AT5G46920			Intron maturase, type II famil...		Potri.001G147801 [exp]	7.00	0.9182
AT2G39620			Pentatricopeptide repeat (PPR)...		Potri.008G052200 [exp]	9.16	0.9123

Compare expression of checked genes

Potri.005G006400 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.