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 AT3G59040 811 / 0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT5G39710 172 / 9e-46 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G02860 173 / 1e-45 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT2G41720 168 / 4e-44 EMB2654 EMBRYO DEFECTIVE 2654, Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT5G12100 165 / 6e-43 pentatricopeptide (PPR) repeat-containing protein (.1) AT2G31400 163 / 4e-42 GUN1 genomes uncoupled 1 (.1) AT1G63130 160 / 6e-42 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT2G35130 154 / 4e-40 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) AT1G74850 155 / 1e-39 PDE343, PTAC2 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) AT1G62930 151 / 8e-39 RPF3 RNA processing factor 3, 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.006G257300 [exp] 199 / 9e-56 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 197 / 1e-55 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 193 / 7e-54 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.004G074500 [exp] 184 / 1e-50 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242200 [exp] 181 / 2e-49 AT1G62930 472 / 4e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 180 / 4e-49 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074700 [exp] 178 / 5e-49 AT1G62930 481 / 1e-164 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.017G032100 [exp] 178 / 1e-48 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 178 / 1e-48 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like 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 Lus10027829 [exp] 739 / 0 AT3G59040 703 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10005058 [exp] 665 / 0 AT3G59040 623 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1), Tetratricopeptide repeat (TPR)-like superfamily protein (.2) Lus10002107 [exp] 179 / 6e-48 AT5G02860 1040 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10013894 [exp] 179 / 1e-47 AT5G02860 1047 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027916 [exp] 174 / 4e-46 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10012068 [exp] 169 / 3e-44 AT5G39710 1028 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027914 [exp] 168 / 5e-44 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10039149 [exp] 163 / 3e-42 AT3G18110 976 / 0.0 embryo defective 1270, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10033127 [exp] 160 / 3e-41 AT1G74850 1179 / 0.0 PIGMENT DEFECTIVE 343, plastid transcriptionally active 2 (.1) Lus10003657 [exp] 155 / 1e-39 AT2G31400 902 / 0.0 genomes uncoupled 1 (.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.001G220300.1 pacid=42788114 polypeptide=Potri.001G220300.1.p locus=Potri.001G220300 ID=Potri.001G220300.1.v4.1 annot-version=v4.1 ATGGCCCCAGCCCTATCTCTTAGGCCCTGTATCTCTGCTTCTTCTAGTAATTGGAGCCAGCCAAAAATGCATGCTAATCCTTTCATCGCAAACATTAAAA TCCATCGAAGATTGGAAGTAGTGTCTATGGGTATGTTGTCTCCTAGAAAGTTTTTGCAAAAGAGAAGGAAAGTGGAAGTATTTAAAGATGCGTCTGATGA AGCTGATCAGAAGAATTGGAGGAGACTGATGAAGCAAATCGAGGATACAGGTTCTGCAGTTTCTGTGCTTAGAAGGGAGAGAATCAAGAAAGATGGTCTT CCTAGAGACCTGGTTTTGGGCACATTAGTTAGGTTTAAGCAGCTAAAGAAATGGGATCTTGTTAGTGAGATTTTAGAATGGCTTCAGTCACAGCATTGGT GGGACTTCAACGAAATGGATTTCCTTATGCTTATCACTGCTTATGGAAAGCTAGGGGATTTCAATGGGGCTGAAATGGTTTTGAGATCTATGAATGGGAA TGGTTATGTGCCAAATGTTGTATCACACACTGCACTTATGGAGGCATATGGAAGAGGAGGCCGATATAACAATGCTGAAGCCATCTTTCGGAGGATGCAG ACCTCAGGCCCTGAGCCCTCTGCTTTGACGTATCAAATAATACTAAAAACATTTGTTGAGGGAAACAAATTTAAGGAAGCTGAAGAAGTTTTTGAGACTC TTCTCAATAAAGAAAATTCACCTTTGGAACCAGATCAAAAAATGTTCCATATGATGATATATATGCAGAAAAAGGCTGGGAATTATGAAAAGGCTCGTAA AGTATTTGCGCTGATGGCTGAGCGAGGAGTTCCACAATCCACTGTTACTTATAACAGTCTAATGTCATTTGAAACTAATTATAAGGAGGTTTCGAAGATC TATGACCAGATGCAAAGATCTGGCCTTCGACCTGATGTTGTGAGCTACGCATTGCTCATTAAAGCTTATGGGAGAGCTCGAAGGGAAGAAGAAGCTTTAG CTGTTTTTGAAGAGATGCTGGATGCTGGTGTCAGGCCAAGCCACAAAGCTTATAACATCTTGCTCGATGCATTTGCTATCTCCGGAATGGTGGAGCAAGC TCGGGTGGTGTTCAAGAGCATGAGAAGAGACAGATGCACCCCAGATCTTTGCTCTTATACAACGATGTTATCAGCATATGTGAATGCTTCTGATATGGAG GGTGCTGAAAATTTCTTCAAAAGACTGAGACAAGATGGTCTTAAACCCAACGTCGTCACTTATGGGGCACTGATCAAAGGGCATGCCAAGGTAAATAATC TTGAAAAGATGATGGAAATATATGAAGAAATGCAGTTAAACAGTATCAAAGCAAACCAGACAATTCTCACTACAATAATGGACGCATATGGTAAGAACAA GGATTTTGGCAGTGCTGTTATTTGGTACAAGGAAATGGAGCATCATGGGGTCCCTCCTGACCAGAAGGCACAGAACATTCTTCTATCTCTGGCCAAGACA CAGGATGAACAAAAGGAAGCCAGTCAACTTGTAGGATATCCAGATGATTGTGGTATACAAAGCATTAACGGGGCTTCTAGGTTTGCAGATGACGATGGCA GTGATGATGAAACAGATGATGAGGATGACTATGATGAAGCTGACAAGAATGATGACGAGGATGATTGTGATGGAGTGGATGATACAGCAAAGACAGTTTC ATACAGTAAAGAGTGCGAAGACTTGATATTTCTTGATGGGGATAATCAACATAACTTGGAAGCACTACATGCTCTTACTGTCATTGATTTGTAA
AA sequence Show only first row Show all	>Potri.001G220300.1 pacid=42788114 polypeptide=Potri.001G220300.1.p locus=Potri.001G220300 ID=Potri.001G220300.1.v4.1 annot-version=v4.1 MAPALSLRPCISASSSNWSQPKMHANPFIANIKIHRRLEVVSMGMLSPRKFLQKRRKVEVFKDASDEADQKNWRRLMKQIEDTGSAVSVLRRERIKKDGL PRDLVLGTLVRFKQLKKWDLVSEILEWLQSQHWWDFNEMDFLMLITAYGKLGDFNGAEMVLRSMNGNGYVPNVVSHTALMEAYGRGGRYNNAEAIFRRMQ TSGPEPSALTYQIILKTFVEGNKFKEAEEVFETLLNKENSPLEPDQKMFHMMIYMQKKAGNYEKARKVFALMAERGVPQSTVTYNSLMSFETNYKEVSKI YDQMQRSGLRPDVVSYALLIKAYGRARREEEALAVFEEMLDAGVRPSHKAYNILLDAFAISGMVEQARVVFKSMRRDRCTPDLCSYTTMLSAYVNASDME GAENFFKRLRQDGLKPNVVTYGALIKGHAKVNNLEKMMEIYEEMQLNSIKANQTILTTIMDAYGKNKDFGSAVIWYKEMEHHGVPPDQKAQNILLSLAKT QDEQKEASQLVGYPDDCGIQSINGASRFADDDGSDDETDDEDDYDEADKNDDEDDCDGVDDTAKTVSYSKECEDLIFLDGDNQHNLEALHALTVIDL

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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
AT3G59040			Tetratricopeptide repeat (TPR)...		Potri.001G220300 [exp]	0	1
AT5G18570		EMB3138, ATOBGL...	EMBRYO DEFECTIVE 3138, EMBRYO ...		Potri.010G022400 [exp]	1.73	0.9764
AT1G71720		PDE338	PIGMENT DEFECTIVE 338, Nucleic...		Potri.005G197900 [exp]	2.82	0.9708
AT4G29750			CRS1 / YhbY (CRM) domain-conta...		Potri.006G148901 [exp]	3.46	0.9757
AT1G06730			pfkB-like carbohydrate kinase ...		Potri.005G220400 [exp]	4.24	0.9732
AT5G62840			Phosphoglycerate mutase family...		Potri.015G074700 [exp]	4.24	0.9694
AT5G11270		OCP3	overexpressor of cationic pero...		Potri.006G251700 [exp]	4.47	0.9742
AT5G47470			Nodulin MtN21 /EamA-like trans...		Potri.003G077300 [exp]	6.00	0.9672	N21L4
AT2G31840		MRL7-L	Mesophyll-cell RNAi Library li...		Potri.007G145700 [exp]	8.12	0.9611
AT3G29185			Domain of unknown function (DU...		Potri.004G120900 [exp]	8.71	0.9745
AT2G40690		SFD1, GLY1	SUPPRESSOR OF FATTY ACID DESAT...		Potri.013G090900 [exp]	8.77	0.9712

Compare expression of checked genes

Potri.001G220300 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.