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 AT1G09620 1623 / 0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) AT5G16715 57 / 7e-08 EMB2247 embryo defective 2247, ATP binding;valine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) AT4G04350 56 / 2e-07 EMB2369 EMBRYO DEFECTIVE 2369, tRNA synthetase class I (I, L, M and V) family protein (.1) AT2G31170 47 / 5e-05 FIONA, SYCOARATH ,SYCO ARATH cysteinyl t-RNA synthetase, FIONA, Cysteinyl-tRNA synthetase, class Ia family protein (.1.2) AT1G14610 47 / 0.0001 VALRS, TWN2 VALYL TRNA SYNTHETASE, TWIN 2, valyl-tRNA synthetase / valine--tRNA ligase (VALRS) (.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.004G226700 [exp] 2013 / 0 AT1G09620 1647 / 0.0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Potri.017G124500 [exp] 61 / 3e-09 AT5G16715 1627 / 0.0 embryo defective 2247, ATP binding;valine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Potri.011G009600 [exp] 54 / 6e-07 AT4G04350 1443 / 0.0 EMBRYO DEFECTIVE 2369, tRNA synthetase class I (I, L, M and V) family protein (.1) Potri.017G033200 [exp] 44 / 0.001 AT4G10320 1940 / 0.0 tRNA synthetase class I (I, L, M and V) family 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 Lus10024704 [exp] 1778 / 0 AT1G09620 1696 / 0.0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Lus10032320 [exp] 897 / 0 AT1G09620 882 / 0.0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Lus10032321 [exp] 683 / 0 AT1G09620 648 / 0.0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Lus10025653 [exp] 591 / 0 AT1G09620 566 / 0.0 ATP binding;leucine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Lus10015552 [exp] 54 / 5e-07 AT4G04350 1412 / 0.0 EMBRYO DEFECTIVE 2369, tRNA synthetase class I (I, L, M and V) family protein (.1) Lus10009139 [exp] 53 / 2e-06 AT5G16715 1128 / 0.0 embryo defective 2247, ATP binding;valine-tRNA ligases;aminoacyl-tRNA ligases;nucleotide binding;ATP binding;aminoacyl-tRNA ligases (.1) Lus10001953 [exp] 44 / 0.0005 AT2G31170 305 / 5e-102 cysteinyl t-RNA synthetase, FIONA, Cysteinyl-tRNA synthetase, class Ia family protein (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0039 [poplar] [flax] HUP PF00133 [poplar] [flax] tRNA-synt_1 tRNA synthetases class I (I, L, M and V) CL0258 [poplar] [flax] DALR PF08264 [poplar] [flax] Anticodon_1 Anticodon-binding domain of tRNA ligase
Representative CDS sequence Show only first row Show all	>Potri.003G003900.1 pacid=42787293 polypeptide=Potri.003G003900.1.p locus=Potri.003G003900 ID=Potri.003G003900.1.v4.1 annot-version=v4.1 ATGATGGCAACCGAGAGTGGAAAAGCTTTCACAAGGAGGGACCGGCTGTTGGAGATAGAGAAGAAGGTCCGTGGCTGGTGGGATGAGAAAGATGTTTTCC GGGCTGAACCTGGTGCAGGGCCAGCTAAACCAGGCGAGAAGTTCTTTGGCAACTTCCCATTTCCGTATATGAATGGGTTCTTGCATCTTGGACATGCGTT TTCGCTCTCCAAGCTTGAATTTGCCGCTGCTTTCCATAGATTGGATGGGGCTAACGTGCTCCTTCCATTTGGTTTTCACTGCACCGGTATGCCTATACAG GCCTCAGCAGATAAGCTTGCAAGGGAGATTGAAAAGTTTGGCAATCCACCCTTGTTCTCGAAAGAGGTAGAGGAGCCAGTGGAATCGCAACCAGAGCCTG AGGATGCAAGTGCATGTCCACCGCCAGATAAGTTCAGGGGCAAAAAGTCCAAGGCTGTGTCGAAATCAGGTGGACAGATGTTTCAGTGGGAGATTATGCG CAGTTTTGGGCTGTCTGACAGTGAAATAGCAGAGTTCCAGAAACCAGGAAAATGGCTGACTTACTTTCCGCCACTGGCCATGCAAGATCTGAAGGATTTT GGCTTGGGATGTGATTGGAGAAGATCATTTATTACAACAGAAATGAATCCATATTTTGATTCATTTGTGCAGTGGCAGATGAGGAAGTTGAAGGACATGG GGAAGATTATCAAAGATAAAAGATACACTATATACTCTCCCTTGGATGACCAGCCATGTGCAGATCATGACAGGGCAAGCGGTGAAGGTGTGTTGCCCCA AGATTACACTCTTGTCAAGATGGAAGTGTTGCCCCCTTTCCCACTTAAATTCAAAGCATTGGAGGGAAGAAAAGTGTTTCTAGCTGCTGCTACATTGAGA CCTGAGACTATGTATGGACAAACAAATGCATGGGTACTGCCTGATGGCAATTATGGAGCTTTTGAAGTCAATGATACTGATGTCTTCATCCTGACAGAAA GAGCTGCCCTCAATCTTGCCTATCAGGGCTTCTCAAAGACCCCCAAACACCCTAGTTGCTTGGTTGAGCTGACTGGGTATGATCTGATTGGTCTGCCATT GAAGTCTCCGCTTTCCTTCAACAAGGTCATTTATGCGCTTCCCATGCTGACCATTCTGACAGACAAAGGTACAGGGATTGTTACCAGTGTGCCTAGCGAT GCCCCTGATGATTATATGGCATTGCGGGTTTTGAAAGCGAAACCAGCTTTCAGGGAAAAGTATGGCGTGAAGGATGAGTGGGTAGTGCCTTTTGAGATTG TACCTATAATCAACATTCCAGAATTGGGCGATAAGGCTGCTGAAAAGGTTTGCTTGGACCTGAAAATTATGAGCCAAAATGAGAAAGAGAAGCTTGCTGA AGCTAAGAGGTTGACGTACTTGAAAGGATTTACTGATGGCACAATGCTTGTTGGAGAATATGCAGGGATGAAAGTTCAAGAAGCAAAGTCATTGTTACGG ACCAAGCTCATTGAGACAGGTGAGGCAGTCATGTACAGTGAGCCTGAGAAGCGTGTCATGTCAAGGTCTGGTGATGAATGTGTTGTGGCTCTGACGGACC AATGGTACCTCACTTATGATGATCCTCAATGGAAGGAATCAGCTGAGGAGTGCTTATCCAAGATGAATCTCTACTCTGATGAGACAAAACATGGCTTTGA GCATACTTTGGGCTGGCTAAATCGGTGGGCTTGCTCAAGATCTTTTGGGCTTGGGACTCGCATTCCATGGGATCCAGAGTTTCTTGTTGAATCATTGTCT GACTCTACTATTTACATGGCTTATTACGCTGTTGCTCACTTGCTACATAACGAGGACATGTACGGTACAAACAAGGCTCATCCCATTAAACCTGAAGAAA TGACTGATGATGTCTGGAATTTCATCTTCTGTGATGGTCCATACCCCACATCATCAAAAATCGATTCGTCTGTTCTTGATAAGATGAAGAAGGAGTTCGA ATATTGGTACCCATTTGATCTTCGAGTGTCTGGGAAGGACCTCATTCAGAATCATCTGACGTTCTGCGTCTTCAACCACACAGCAATCATGGCTAAGCAT CACTGGCCACGTGGATTCAGGTGTAATGGACACATTATGCTCAATTCTGAGAAGATGTCCAAGTCTACAGGAAATTTCAAGACGCTGCGTCAGGCCATTG ATGAATTCTCTGCGGATGCTACTCGGTTCAGTCTGGCTGATGCTGGAGATGGTGTGGACGATGCCAACTTTGTATTTGAGACTGCGAATGCTGCTATCCT TCGCCTTACTAAAGAGATTGCATGGATTGAAGAGGTTCTAGCTGCAGAGGCATCCCTGAGAACTGGTCCACCATCTACCTTTGCTGATCGGGTGTTTGAA AATGAAATAAATATTGCTGTTGAAACGACAAGAAAGAATTATGAAAAATACATGTTCAGAGAGGCGTTAAAGACTGGATTCTATGATCTCCAAGCTGCCA GAGACGAGTACAGGTTATCTTGTGGTAGCGGGGGCATGAATCATGGCTTGGTATGGCGTTTTATTGATGTGCAGACACGACTTATTACTCCTATCTGCCC ACATTATGCAGAACATGTTTGGAGGGAGCTTTTGTTGAAGGATGGATTAGCAGTGAATGCAGGCTGGCCTATTGCTGATTCTCCAGATGAAACTCTTAAG GCTGCCAACAAGTACTTGCAAGACTCGATTGTTTTGATGAGGAAGCTTCTTCAAAAGCAAATCACGGGTTCAAAGAAATCCAATAAGAAGGCAGCTCCAG TTGCTACACTAACTGAAGAGAAGATAACAAGTTTGATATATGTGAATGAGGAGTTTGATGGATGGAAAGCAGAGTGCTTGAATATACTTCGTAGTAAATT TGACAGAAAAACAGGTACTTTTGCACCAGATGAGGAGATATTGGAGGCACTGCAAAAAAGTTCAGTTGGTCAAGATGCTAACTTTAAGAAAGTGCAAAAG CTTTGTATGCCTTTCTTGAGGTTAAAAAAGGACGAAGCTATAGCTATCGGGGCTCAAGCCTTGAATCTGAAGCTTCCGTTTGGGGAGATTGAGGTTCTTC AGGAGAACCTGGACTTGATCAAGAGGCAAATTGGTCTGGGGTCGGTGGAAATATTGTCTGCAACAGACCACGATGCTAAAGCCAAAGCTGGTGCCTTGTC CTCTGTACTGGATCAGAATCCTCCCTCTCCTGGAAATCCGACTGCTGTCTTCTTGATACATAACAGGTAG
AA sequence Show only first row Show all	>Potri.003G003900.1 pacid=42787293 polypeptide=Potri.003G003900.1.p locus=Potri.003G003900 ID=Potri.003G003900.1.v4.1 annot-version=v4.1 MMATESGKAFTRRDRLLEIEKKVRGWWDEKDVFRAEPGAGPAKPGEKFFGNFPFPYMNGFLHLGHAFSLSKLEFAAAFHRLDGANVLLPFGFHCTGMPIQ ASADKLAREIEKFGNPPLFSKEVEEPVESQPEPEDASACPPPDKFRGKKSKAVSKSGGQMFQWEIMRSFGLSDSEIAEFQKPGKWLTYFPPLAMQDLKDF GLGCDWRRSFITTEMNPYFDSFVQWQMRKLKDMGKIIKDKRYTIYSPLDDQPCADHDRASGEGVLPQDYTLVKMEVLPPFPLKFKALEGRKVFLAAATLR PETMYGQTNAWVLPDGNYGAFEVNDTDVFILTERAALNLAYQGFSKTPKHPSCLVELTGYDLIGLPLKSPLSFNKVIYALPMLTILTDKGTGIVTSVPSD APDDYMALRVLKAKPAFREKYGVKDEWVVPFEIVPIINIPELGDKAAEKVCLDLKIMSQNEKEKLAEAKRLTYLKGFTDGTMLVGEYAGMKVQEAKSLLR TKLIETGEAVMYSEPEKRVMSRSGDECVVALTDQWYLTYDDPQWKESAEECLSKMNLYSDETKHGFEHTLGWLNRWACSRSFGLGTRIPWDPEFLVESLS DSTIYMAYYAVAHLLHNEDMYGTNKAHPIKPEEMTDDVWNFIFCDGPYPTSSKIDSSVLDKMKKEFEYWYPFDLRVSGKDLIQNHLTFCVFNHTAIMAKH HWPRGFRCNGHIMLNSEKMSKSTGNFKTLRQAIDEFSADATRFSLADAGDGVDDANFVFETANAAILRLTKEIAWIEEVLAAEASLRTGPPSTFADRVFE NEINIAVETTRKNYEKYMFREALKTGFYDLQAARDEYRLSCGSGGMNHGLVWRFIDVQTRLITPICPHYAEHVWRELLLKDGLAVNAGWPIADSPDETLK AANKYLQDSIVLMRKLLQKQITGSKKSNKKAAPVATLTEEKITSLIYVNEEFDGWKAECLNILRSKFDRKTGTFAPDEEILEALQKSSVGQDANFKKVQK LCMPFLRLKKDEAIAIGAQALNLKLPFGEIEVLQENLDLIKRQIGLGSVEILSATDHDAKAKAGALSSVLDQNPPSPGNPTAVFLIHNR

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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
AT1G09620			ATP binding;leucine-tRNA ligas...		Potri.003G003900 [exp]	0	1
AT5G13700		ATPAO1, APAO	polyamine oxidase 1 (.1)		Potri.001G263400 [exp]	4.24	0.7749
AT5G10240		ASN3	asparagine synthetase 3 (.1.2)		Potri.005G075700 [exp]	9.27	0.8138
AT5G15080			Protein kinase superfamily pro...		Potri.010G033800 [exp]	10.29	0.8161
AT3G11710		ATKRS-1	lysyl-tRNA synthetase 1 (.1)		Potri.018G090400 [exp]	12.36	0.7929
AT4G28440			Nucleic acid-binding, OB-fold-...		Potri.017G014400 [exp]	12.96	0.7746
AT5G19875			unknown protein		Potri.003G216100 [exp]	14.42	0.7603
AT1G68300			Adenine nucleotide alpha hydro...		Potri.010G123400 [exp]	15.09	0.7869
AT3G61550			RING/U-box superfamily protein...		Potri.014G091000 [exp]	22.27	0.7740
					Potri.009G170400 [exp]	23.87	0.7799
AT5G03970			F-box associated ubiquitinatio...		Potri.005G124500 [exp]	24.73	0.7653

Compare expression of checked genes

Potri.003G003900 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.