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 AT1G10910 796 / 0 EMB3103 EMBRYO DEFECTIVE 3103, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G74850 152 / 3e-38 PDE343, PTAC2 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) AT5G64320 137 / 1e-33 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G18110 138 / 2e-33 EMB1270 embryo defective 1270, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G39710 135 / 7e-33 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT2G31400 135 / 1e-32 GUN1 genomes uncoupled 1 (.1) AT5G61400 128 / 8e-31 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G22470 127 / 1e-30 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G02860 126 / 6e-30 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 124 / 2e-29 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.001G211300 [exp] 1066 / 0 AT1G10910 773 / 0.0 EMBRYO DEFECTIVE 3103, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.014G118500 [exp] 144 / 1e-35 AT2G31400 1213 / 0.0 genomes uncoupled 1 (.1) Potri.007G123900 [exp] 144 / 1e-35 AT3G18110 1974 / 0.0 embryo defective 1270, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.017G036400 [exp] 144 / 3e-35 AT3G18110 1949 / 0.0 embryo defective 1270, Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.002G193900 [exp] 142 / 5e-35 AT2G31400 1192 / 0.0 genomes uncoupled 1 (.1) Potri.015G069100 [exp] 140 / 2e-34 AT1G74850 1268 / 0.0 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) Potri.013G032600 [exp] 138 / 3e-34 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 136 / 2e-33 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.010G217600 [exp] 135 / 7e-33 AT2G16880 677 / 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 Lus10001378 [exp] 874 / 0 AT1G10910 818 / 0.0 EMBRYO DEFECTIVE 3103, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10010410 [exp] 139 / 7e-34 AT5G59900 998 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10033127 [exp] 137 / 2e-33 AT1G74850 1179 / 0.0 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) Lus10027916 [exp] 136 / 3e-33 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10041421 [exp] 134 / 3e-32 AT2G16880 668 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10012139 [exp] 132 / 7e-32 AT5G59900 987 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10013894 [exp] 132 / 1e-31 AT5G02860 1047 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10036506 [exp] 130 / 3e-31 AT2G16880 675 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10002107 [exp] 130 / 3e-31 AT5G02860 1040 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10007468 [exp] 129 / 7e-31 AT5G01110 808 / 0.0 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.003G019000.3 pacid=42786425 polypeptide=Potri.003G019000.3.p locus=Potri.003G019000 ID=Potri.003G019000.3.v4.1 annot-version=v4.1 ATGGAGTTATCACCTACAAGCACTTGCACAGGGTTTCACCATATCCACCCCCGCCCAACACCCTTATCTTTCCCATTAACTCCTCGTGTATCCACCGCCA TCACCAGCAGCAGCGGCGGCGGCGGTAGAGGCAGCCAACGCAGTTCTGCAGCAGCAGCAGCAGCACCAACACCAACACCAACACTTGTCGATATCTCTTG TAATGACCCACAAAACGGCTGTGCAGTTGACGCTCAAAGGCGTCACTCAAAGCCATACTTGGCTAGAAAAAATGCCATTCTTCAAGTTCAACAATCACCC CATTTGGATTCTGCTCTCCAAAGATTTGGAGGGGTGTTGAAGGTGCAAGACTTGAATGTCATTTTGCGGAATTTTGGGCAGCAAAGCAGATGGCAGGATC TTTCTCAGCTCTTTGATTGGATGCAACAGCACAGCAAAATCAGTGCTTCATCTTATAGCAGTTATATAAAGTTCACGGGGACAAGTCTAAACCCTGCAAA GGCATTAGAAATGTACAACAGCATTTCTGATGAATCGACAAAAAATAATGTCTTCATATGTAATTCAGTTCTTAGATGCCTGGTCAGGAATGGCAAGTTT GATAGCAGTATGAAATTGTTTCGTAAGATGAAGCACAATGGTCTAATACCAGATGCTATTACATATAGTACGCTGCTAGCAGGGTGCATGAAAGTCAAAG ATGGGTATTCTAAAGCATTGGATCTGGTTCAGGAACTGAATTACAATGGACTGCAGATGGACAGCGTAATGTATGGGACACTTTTGGTGGTTTGTGCTTC AAATAATCGGTGCGAAGAAGCACAAAGCTATTTTAACCAGATGAAGGATGAGGGTCATTCACCTAATATATATCATTATAGCTCATTACTCAATGCTTAC GCTTCTGGTGGAAACTACAAGAAGGCTGAGGAGTTGGTGCAGGACATGAAATCTTCAGGGTTAGTACCAAATAAGGTAATGTTGACAACTCAGCTAAAGG TATATGTAAGAGGACGCTTGTTTGAAAAATCTAGAGACCTTCTGGTAGAACTGGACACTTTGGGCTTTGCAAAAGATGAGATGCCCTACTGTTTATTGAT GGATGGCCTTGCCAAGACTGGGTGTATAGATGAAGCAAGATCAGTTTTCAATGAAATGAAGGAAAAATGTGTTAAACCTGGTGGCTATTCCTACAGTATA ATGATTTCATCATTTTGCCGAGGTGGGCTTTTTGAAGAGGCAAAGGAGTTGGCAGAGGAGTTTGAAGCCAAGTATGATAAATATGATGTAGCTATATCGA ATGCAATTCTATGTGCCTACTGTAGAGCAGGTGAAATGGAGAGCGTGATGCGAACAATGAGGAAAATGGATGAATTGGCAATCAGTCCTGACTATAATAC TTTTCATATTCTGATCAAGTATTTCTGTAAGGAGAAGTTATATATGCTTGCTTACCAGACCATGGAAGACATGCATAGGAAAGGCCATCAACCTGCAGAG GAGCTTTGTTCTTCGTTGCTTTTCCATCTTGGTAAGATTAAAGCCCATTCAGAAGCCTTTTCAGTTTATAGTATGTTGAAGTATAGCAAAAGAACAATGT GTAAAGCCTTTCATGAGAAAATTTTACACATTCTTATTGCTGGAAAGCTTCTCAAAGACGCTTATGTAGTAGTCAAGGATAATGCAAAATTTATCTCTTC AGCTGCAATTAAGAAGTTTGCAAAATCATTTGTGAAGCTTGGTAACATCAATTTGATAAATGATGTTCTGAAGGTTATTCATGGTTCTGGATACAAGATA GATCAGCGACTATTTCAGATGGCCGTGTCACGTTACATTGCTCAACCTGAAAAGAAGGACTTGCTTCTACAATTGCTACAATGGATGAGAGGCCAAGGTT ATGTTGTTGATTCATCAACAAGAAACCTAATCCTTAAGAATGCACACTTGTTTGGTCAGCAATTCATTGCTGAGATCTTGTCCAAGAAGCACATGATGTC AAAAGCCTTGAAATCTCATTGGATGACAAAAGGCTAG
AA sequence Show only first row Show all	>Potri.003G019000.3 pacid=42786425 polypeptide=Potri.003G019000.3.p locus=Potri.003G019000 ID=Potri.003G019000.3.v4.1 annot-version=v4.1 MELSPTSTCTGFHHIHPRPTPLSFPLTPRVSTAITSSSGGGGRGSQRSSAAAAAAPTPTPTLVDISCNDPQNGCAVDAQRRHSKPYLARKNAILQVQQSP HLDSALQRFGGVLKVQDLNVILRNFGQQSRWQDLSQLFDWMQQHSKISASSYSSYIKFTGTSLNPAKALEMYNSISDESTKNNVFICNSVLRCLVRNGKF DSSMKLFRKMKHNGLIPDAITYSTLLAGCMKVKDGYSKALDLVQELNYNGLQMDSVMYGTLLVVCASNNRCEEAQSYFNQMKDEGHSPNIYHYSSLLNAY ASGGNYKKAEELVQDMKSSGLVPNKVMLTTQLKVYVRGRLFEKSRDLLVELDTLGFAKDEMPYCLLMDGLAKTGCIDEARSVFNEMKEKCVKPGGYSYSI MISSFCRGGLFEEAKELAEEFEAKYDKYDVAISNAILCAYCRAGEMESVMRTMRKMDELAISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPAE ELCSSLLFHLGKIKAHSEAFSVYSMLKYSKRTMCKAFHEKILHILIAGKLLKDAYVVVKDNAKFISSAAIKKFAKSFVKLGNINLINDVLKVIHGSGYKI DQRLFQMAVSRYIAQPEKKDLLLQLLQWMRGQGYVVDSSTRNLILKNAHLFGQQFIAEILSKKHMMSKALKSHWMTKG

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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
AT1G10910		EMB3103	EMBRYO DEFECTIVE 3103, Pentatr...		Potri.003G019000 [exp]	0	1
AT5G02250		ATMTRNASEII, RN...	ribonucleotide reductase 1, EM...		Potri.006G086200 [exp]	8.06	0.8728
AT1G08070		EMB3102, OTP82	ORGANELLE TRANSCRIPT PROCESSIN...		Potri.005G011000 [exp]	9.94	0.8290
AT2G31530		EMB2289, SCY2	SECY HOMOLOG 2, EMBRYO DEFECTI...		Potri.002G053900 [exp]	11.48	0.8594
AT5G16715		EMB2247	embryo defective 2247, ATP bin...		Potri.017G124500 [exp]	13.56	0.8461
AT4G30720		PDE327	PIGMENT DEFECTIVE 327, FAD/NAD...		Potri.018G103700 [exp]	16.15	0.8300
AT1G56180			unknown protein		Potri.010G171400 [exp]	16.73	0.8480
AT1G28560		SRD2	SHOOT REDIFFERENTIATION DEFECT...		Potri.015G143000 [exp]	16.88	0.8424
AT1G06950		ATTIC110, TIC11...	ARABIDOPSIS THALIANA TRANSLOCO...		Potri.013G154300 [exp]	18.97	0.8484
					Potri.007G054500 [exp]	19.79	0.8301
AT2G20790			clathrin adaptor complexes med...		Potri.010G028600 [exp]	21.21	0.7888

Compare expression of checked genes

Potri.003G019000 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.