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 AT5G16860 1084 / 0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT4G18750 556 / 0 DOT4 DEFECTIVELY ORGANIZED TRIBUTARIES 4, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G11290 551 / 0 CRR22 CHLORORESPIRATORY REDUCTION22, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G22690 530 / 3e-176 unknown protein AT2G22070 526 / 2e-175 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G25360 506 / 1e-167 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G68930 503 / 6e-167 pentatricopeptide (PPR) repeat-containing protein (.1) AT3G23330 494 / 4e-164 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G20230 495 / 5e-164 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT2G27610 495 / 2e-162 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.005G215500 [exp] 581 / 0 AT3G63370 922 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 86, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.003G191000 [exp] 581 / 0 AT1G11290 1178 / 0.0 CHLORORESPIRATORY REDUCTION22, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.004G059400 [exp] 573 / 0 AT4G18750 1110 / 0.0 DEFECTIVELY ORGANIZED TRIBUTARIES 4, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G466066 [exp] 562 / 0 AT4G33990 1067 / 0.0 embryo defective 2758, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G047800 [exp] 560 / 0 AT4G13650 654 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.018G067500 [exp] 553 / 0 AT4G13650 590 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.003G006800 [exp] 549 / 0 AT3G16610 687 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Potri.015G018700 [exp] 546 / 0 AT3G49170 1040 / 0.0 embryo defective 2261, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.007G085500 [exp] 535 / 8e-179 AT2G22070 1088 / 0.0 pentatricopeptide (PPR) repeat-containing 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 Lus10018897 [exp] 1120 / 0 AT5G16860 970 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10028593 [exp] 971 / 0 AT5G16860 879 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10017446 [exp] 587 / 0 AT1G11290 1152 / 0.0 CHLORORESPIRATORY REDUCTION22, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10004081 [exp] 554 / 0 AT3G63370 893 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 86, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014707 [exp] 549 / 0 AT3G63370 893 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 86, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10035788 [exp] 535 / 6e-179 AT3G16610 636 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10015225 [exp] 527 / 2e-174 AT4G18750 990 / 0.0 DEFECTIVELY ORGANIZED TRIBUTARIES 4, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10007806 [exp] 519 / 2e-171 AT3G03580 967 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10019735 [exp] 509 / 2e-168 AT4G33990 1015 / 0.0 embryo defective 2758, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10033026 [exp] 506 / 4e-168 AT1G08070 921 / 0.0 ORGANELLE TRANSCRIPT PROCESSING 82, EMBRYO DEFECTIVE 3102, Tetratricopeptide repeat (TPR)-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 CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family CL0020 [poplar] [flax] TPR PF13812 [poplar] [flax] PPR_3 Pentatricopeptide repeat domain 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.012G041200.1 pacid=42782911 polypeptide=Potri.012G041200.1.p locus=Potri.012G041200 ID=Potri.012G041200.1.v4.1 annot-version=v4.1 ATGCTATTCCGCCACATACTCCTCCACCACAGCCGCCGTTTCTCCTCCTCTGCTGCAATAACTCCTCCCTTAATCACTCCTACACTCCTCAAACAATGCA ATTCAGTTTCTCAGGTAAACCTTATCCACCAACAAACACTTGTCCAAGGCCTAATTACCCATTTCTCCACCAATCTCATTTCCACTTACATTGCTATCAG TTCTCCTTCCCATGCCCTCTCCCTCCTCCAAAACCTCACTCCCTCTCCTTCCGCTGTCTACTTCTGGAATGCACTGATTCGCTGTTCCATCCGACCCGGA CTTTTGAACCATTCCCTTGCTCTTTTCCGTAACATGTGGAGACTGGGCTGGACTCCTGATAATTATACTTTTCCTTTGGTTTTTAAGGCTTGTGGGGATT TAATGTGTTGTAGACTTGGTGCTTCGATTCATGGTGTTGTTTTTTTAACCGGGTTTGAGTCTAATGTGTTTGTTTGTAATGCTATTGTGGCGATGTATGG AAGGTGTGGTGAATTGGACTGTGCGCGCAAACTGTTTGATGAAATGTGTGAAAGAAGGGTGTATGATTTGGTTTCGTGGAATTCGATTGTCGCTGTTTAT GTGCAAAGAGGGGATTGTAAGAATGCGTTGAGGTTGTTTGATAGAATGTGTAAACTGGGTGATATTGATATGAGGCCGGATGTTGTTAGTCTTGTGAATG TGCTTCCTGCTTGCGCATCGATGGGTGCGTGGTTGCATGGTAAAGCAGTGCATGGAATTGCAGTGAGGAGTGGGTCGTTTGAGGATTTGTTTGTGGGTAA TGCTTTGGTGGATATGTATGCGAAGTGTGGAATGGTGGATGAGGCAAGCAAGGTTTTTGACAGGATTAAGGAGAAGGATGTGGTATCTTGGAATGCTATG GTTAATGGGTATTCACAGATTGGTAGGTTTGAGGATGCTCTTGGTTTGTTTGAGAAGATGAGGGAGGAGAATATTGAGTTGAATGTTGTGTCTTGGAGTG CTGTTATTGCAGGATTTGCACAGAGAGGACTTGGGTGTGAAACTTTGGATGTGTTTCGGGAAATGCAAGTTTGTGGGTCGAAGCCAAATGAGGTTACCCT TGTGTCTCTTCTTTCTGGTTGTGCATCGGTTGGAGCATTGCTTCATGGGAAGGAGACTCATTGTTATGCCATAAAATGCATGTTGAACTTTGAGGGGAGT GATCTTGAGGATGATCTTATGGTGATTAATGCTTTAATTGACATGTATGCAAAGTGCAAAAGTATCAATGTGGCACGCACCATGTTTGATTCCATAGAAC CAAAGGATAAGGATGTGGTGAGTTGGACTGTTATGATTGGTGGATATGCCCAGCATGGTGAAGCCAATGACGCATTAGAATTGTTTTCCTGGATTTTCAA ACAGGATGGATTAGTAAAGCCGAATTGCTTCACCATATCTTGTGCCCTAATTGCATGTGCTCGTTTGGCTGCACTGAGGCTTGGTAGACAAATTCATGCT TACATATTACGCAATCATTTTGACTCCGCCTTTCTTTATGTGGCCAATTGTCTCATTGATATGTATGCAAAATCTGGAGATATTGATGTTGCTAGATTTG TGTTTGACAATTTGAAGCAGAAGAATTTTGTTTCTTGGACATCCCTAATGACAGGTTATGGTATGCATGGCCGTGGTAAAGAAGCTCTTGAGGTTTTTGA CGAGATGAGGAGAGTGGGCCTTCAGTCTGATGGTGTAACCTTGCTTGTTGTGCTCTATGCTTGCAGCCATTCAGGAATGATTGATCAGGGGATTAAATTT TTTAACAGCATGAGCAAGGAATTTGGGGTTATTCCTGGTCAAGAACACTATGCTTGCATGGTTGACCTACTGGGTCGTGCTGGTCGCTTAAATGAAGCTA TGGAGCTCATTGAAGGTATGCAAATGGAACCAAGCTCAATAGTGTGGGTGGCATTGCTTAGTGGCTGCAGGATCCATGCAAATGTGGAATTAGGGGAACA TGCTGCAAAACAACTGTTGGAATTGAACTCAGAAAATGATGGATCTTATACACTTCTTTCAAACATATATGCCAATGCCAGGCGCTGGAAAGATGTGGCC AGGGTCAGATCTTTGATGAAAAATAGTGGAATTAGGAAGAGACCTGGCTGCAGTTGGGTCCAGGGAAAGAAAGGCACTACAACCTTCTATGTTGCAGACA AGACTCATCCACAGTCCAAGCAGATATATGAAATCCTGAGAGGCCTGACTCAACGGATTAAAGTCCTTGGATATGTTCCAGAGACCAGCTTTGCACTTCA TGATGTGGATGATGAAGAGAAAGTTGACCTTCTTTTTGAACATAGTGAGAAGTTGGCCCTTGCCTATGGCATCTTAATATCAGCTCCAGGGGCACCCATC CGAATCACCAAGAACTTGCGTGTCTGTGGAGATTGCCACAATGCCATCACCTACATATCCATGATCATTGACCATGAAATCATATTGAGAGACTCAAGCC GCTTCCATCATTTCAAGAAAGGGTCTTGCTCCTGCAGTGGTTATTGGTGA
AA sequence Show only first row Show all	>Potri.012G041200.1 pacid=42782911 polypeptide=Potri.012G041200.1.p locus=Potri.012G041200 ID=Potri.012G041200.1.v4.1 annot-version=v4.1 MLFRHILLHHSRRFSSSAAITPPLITPTLLKQCNSVSQVNLIHQQTLVQGLITHFSTNLISTYIAISSPSHALSLLQNLTPSPSAVYFWNALIRCSIRPG LLNHSLALFRNMWRLGWTPDNYTFPLVFKACGDLMCCRLGASIHGVVFLTGFESNVFVCNAIVAMYGRCGELDCARKLFDEMCERRVYDLVSWNSIVAVY VQRGDCKNALRLFDRMCKLGDIDMRPDVVSLVNVLPACASMGAWLHGKAVHGIAVRSGSFEDLFVGNALVDMYAKCGMVDEASKVFDRIKEKDVVSWNAM VNGYSQIGRFEDALGLFEKMREENIELNVVSWSAVIAGFAQRGLGCETLDVFREMQVCGSKPNEVTLVSLLSGCASVGALLHGKETHCYAIKCMLNFEGS DLEDDLMVINALIDMYAKCKSINVARTMFDSIEPKDKDVVSWTVMIGGYAQHGEANDALELFSWIFKQDGLVKPNCFTISCALIACARLAALRLGRQIHA YILRNHFDSAFLYVANCLIDMYAKSGDIDVARFVFDNLKQKNFVSWTSLMTGYGMHGRGKEALEVFDEMRRVGLQSDGVTLLVVLYACSHSGMIDQGIKF FNSMSKEFGVIPGQEHYACMVDLLGRAGRLNEAMELIEGMQMEPSSIVWVALLSGCRIHANVELGEHAAKQLLELNSENDGSYTLLSNIYANARRWKDVA RVRSLMKNSGIRKRPGCSWVQGKKGTTTFYVADKTHPQSKQIYEILRGLTQRIKVLGYVPETSFALHDVDDEEKVDLLFEHSEKLALAYGILISAPGAPI RITKNLRVCGDCHNAITYISMIIDHEIILRDSSRFHHFKKGSCSCSGYW

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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
AT5G16860			Tetratricopeptide repeat (TPR)...		Potri.012G041200 [exp]	0	1
AT3G27550			RNA-binding CRS1 / YhbY (CRM) ...		Potri.001G343700 [exp]	1.00	0.9240
AT1G16350			Aldolase-type TIM barrel famil...		Potri.010G173600 [exp]	4.47	0.8766	IMPDH.3
AT2G37310			Pentatricopeptide repeat (PPR)...		Potri.006G216100 [exp]	11.22	0.9006
AT1G05670			Pentatricopeptide repeat (PPR-...		Potri.006G223300 [exp]	11.48	0.8931
AT5G15270			RNA-binding KH domain-containi...		Potri.017G114400 [exp]	12.00	0.8603
AT3G12770		MEF22	mitochondrial editing factor ...		Potri.010G063900 [exp]	12.64	0.8890
AT1G16480			Tetratricopeptide repeat (TPR)...		Potri.007G068600 [exp]	14.89	0.8955
AT5G09840			Putative endonuclease or glyco...		Potri.001G307700 [exp]	15.09	0.8871
AT3G61780		EMB1703	embryo defective 1703 (.1)		Potri.014G099100 [exp]	15.49	0.8800
AT3G49890			unknown protein		Potri.001G172500 [exp]	17.32	0.8583

Compare expression of checked genes

Potri.012G041200 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.