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 AT4G13780 1260 / 0 methionine--tRNA ligase, putative / methionyl-tRNA synthetase, putative / MetRS, putative (.1) AT2G40660 159 / 2e-42 Nucleic acid-binding, OB-fold-like protein (.1) AT3G55400 163 / 4e-42 OVA1 OVULE ABORTION 1, methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.1), methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.2) AT3G59980 140 / 6e-37 Nucleic acid-binding, OB-fold-like protein (.1) AT5G02680 0 / 1 unknown protein
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.017G057700 [exp] 1500 / 0 AT4G13780 1255 / 0.0 methionine--tRNA ligase, putative / methionyl-tRNA synthetase, putative / MetRS, putative (.1) Potri.019G058700 [exp] 167 / 3e-45 AT2G40660 396 / 6e-137 Nucleic acid-binding, OB-fold-like protein (.1) Potri.010G207300 [exp] 166 / 3e-43 AT3G55400 935 / 0.0 OVULE ABORTION 1, methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.1), methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.2) Potri.017G000200 [exp] 149 / 5e-40 AT3G59980 276 / 6e-93 Nucleic acid-binding, OB-fold-like 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 Lus10016658 [exp] 1357 / 0 AT4G13780 1280 / 0.0 methionine--tRNA ligase, putative / methionyl-tRNA synthetase, putative / MetRS, putative (.1) Lus10022571 [exp] 1323 / 0 AT4G13780 1280 / 0.0 methionine--tRNA ligase, putative / methionyl-tRNA synthetase, putative / MetRS, putative (.1) Lus10010450 [exp] 957 / 0 AT4G13780 937 / 0.0 methionine--tRNA ligase, putative / methionyl-tRNA synthetase, putative / MetRS, putative (.1) Lus10029026 [exp] 178 / 5e-49 AT2G40660 424 / 1e-147 Nucleic acid-binding, OB-fold-like protein (.1) Lus10034239 [exp] 176 / 8e-48 AT2G40660 413 / 3e-143 Nucleic acid-binding, OB-fold-like protein (.1) Lus10027077 [exp] 155 / 7e-42 AT3G59980 284 / 4e-96 Nucleic acid-binding, OB-fold-like protein (.1) Lus10025611 [exp] 154 / 4e-41 AT3G59980 280 / 3e-94 Nucleic acid-binding, OB-fold-like protein (.1) Lus10005156 [exp] 154 / 9e-39 AT3G55400 931 / 0.0 OVULE ABORTION 1, methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.1), methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.2) Lus10001704 [exp] 137 / 1e-33 AT3G55400 891 / 0.0 OVULE ABORTION 1, methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.1), methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) (.2) Lus10015552 [exp] 50 / 1e-05 AT4G04350 1412 / 0.0 EMBRYO DEFECTIVE 2369, tRNA synthetase class I (I, L, M and V) family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0021 [poplar] [flax] OB PF01588 [poplar] [flax] tRNA_bind Putative tRNA binding domain CL0039 [poplar] [flax] HUP PF09334 [poplar] [flax] tRNA-synt_1g tRNA synthetases class I (M)
Representative CDS sequence Show only first row Show all	>Potri.001G317500.3 pacid=42789026 polypeptide=Potri.001G317500.3.p locus=Potri.001G317500 ID=Potri.001G317500.3.v4.1 annot-version=v4.1 ATGGAAGATCTCAATCGGACGGCCCCGAAGCTACCTATCCCGGGAAAGCGAAACATACTGATAACCAGTGCTTTGCCTTATGTCAATAACGTCCCTCATC TCGGGAACATCATCGGCTGTGTGTTGAGTGCTGATGTTTTTGCTCGATACTGTCGTCTTCGAGGATATAACGCGATTTATATTTGTGGAACTGACGAGTA TGGGACTGCGACTGAGACTAAAGCCATGGAGGAGAATTCCACTCCTAAACAAATTTGTGACAAGTATTATGCGATTCATAGGGAGGTTTATAAATGGTTT AATATAAGTTTTGATGAATTTGGACGTACGTCGAGTCCGCAGCAAACGGAAATTTGTCAAGCAATTTTTAAGAAATTGTTAGAGAATAACTGGCTTTCGG AGAACTCAATGCAACAGCTGTACTGTGATACATGCGAAAGATTCTTAGCTGATCGACTTGTGGAAGGTAATTGTCCAACGGAAGGATGTAATTATGATTC TGCACGAGGAGATCAGTGTGAAAATTGTGGAAAGCTTTTGAATCCTACAGAGTTAATAAATCCCAGGTGCAAGCAATGTAAAAACACACCACGAATCCGT GATACAAATCACTTGTTTCTTGAGCTTCCTCTACTGAAGGATAAATTAGTACACTATATCGAGAGCACATCTGTAGCTGGGGGCTGGAGCCAAAATGCTA TTCAAACAACAAATGCATGGCTTAAAGAAGGATTAAAACCACGATGCATTACTAGGGATCTGAAGTGGGGTGTTCCCGTTCCACTTGAAGAATTTAAGGA CAAGGTGTTCTATGTTTGGTTTGATGCTCCTATTGGATATGTCTCCATTACTTCTTGCTACACTCCTGATTGGGAGAAGTGGTGGAAGAATCCTGAGAAT GTTGAGCTGTATCAGTTTATGGGAAAAGACAATGTGCCATTCCACACTGTGATGTTTCCTTCTACGCTTCTTGGAACAGGTGAAAATTGGACTTTGATGA AGACTATAAGTGTAACTGAATACTTAAATTATGAAGCAGGAAAGTTTTCCAAGAGTAAAGGTGTAGGAGTGTTTGGTAATGATGCAAAGGATACAAATAT TCCTGTAGAAGTTTGGAGATATTATTTGCTAACCAATAGGCCTGAGGTGTCTGACACACTATTTACATGGTCTGATTTGCAAGCAAAAAGTAACAATGAG TTGCTGAATAATTTGGGCAACTTTATTAACCGAGTTCTGAGCTTTCTTGCTAAACCTCCAGGTTCAGGATATGGTTCTGTTATCCCAGATGCTCCAGGTG CAGGCTCTCATCCCCTGACAAATAAATTGGCTGAAGAAGTTGGTAAATATGTGGAGCAATACCTGGAAGCCATGGAAAAGGTTAAATTAAAGCACGGATT GAAAACCGCAATGAGCATTTCTAGTGAGGGAAATGCATATCTGCAAGAAAGCCAATTCTGGAGGCTTTACAAGGAAGACCAACCTTCTTGTTCTATAGTT ATAAAGACTTCATTGGGTCTAGTATATCTTCTCGCATGTTTGTTAGAACCTTTCATGCCATCTTTCTCTGTTGAGGTCTTCAAGCAGCTTAATATGCCCC CTGAACAAGCTTCACTATGTGATGAGAAAGGTGATATGGATAAGGCAAAAAGACCCTGGGAGATCCTACCTGCTGGGCACAAGATTGGGACACCAGAGCC CTTGTTCAAGGAACTGAAAATAGAAGAAGTGGAGGACTACAGGAAGAAATTTGCTGGAAGTCAGGCTGACAGACTTGAGCGGGAAGAAGTTGAAAAGGCA TCTAAGCTTGCTGAGGAACTGAAGAAAAAAGCTACAGTTGGTGGGAAGAAGCAGCAGACCAAAAAACCTGCTGGTGAAGCCAAATCAAGGGGCGCTGTTG AACCAGAAATCTCCATCACAAGACTTGATATTCGTGTTGGCCTAATTAAGAAAGCTCAGAAGCATCCTGATGCTGATTCCCTGTATGTGGAAGAAATCGA CTTGGGTGAAGGAGACTGTAGAACGGTTGTAAGTGGACTTGTCAAGTATATACCTCTTGAGGAGATGCAGAATCGGAAGGTCTGCATCCTTTGCAACCTA AAGCCTGCAAATATGAGGGGCATCAAGTCAGAGGCTATGGTTCTCGCTGCTTCCAGTAGTGACCACACCAAGGTTGAATTGGTTGATCCACCCCAATCTG CCGTTGTTGGAGAGAGAGTGACATTCCCAGGGTTTGAAGGAGAACCTGACGATGTCCTAAACCCTAAGAAGAAAGTCTGGGAGACACTACAGGTGGATCT GCAAACTAACAGTGACCTGGTAGCCTGCTACAAAGATATTCCACTAACCACATCTGCTGGTGTCTGCAAGGTTGCAACCATTAACAATGGTTCCATTAGG TAA
AA sequence Show only first row Show all	>Potri.001G317500.3 pacid=42789026 polypeptide=Potri.001G317500.3.p locus=Potri.001G317500 ID=Potri.001G317500.3.v4.1 annot-version=v4.1 MEDLNRTAPKLPIPGKRNILITSALPYVNNVPHLGNIIGCVLSADVFARYCRLRGYNAIYICGTDEYGTATETKAMEENSTPKQICDKYYAIHREVYKWF NISFDEFGRTSSPQQTEICQAIFKKLLENNWLSENSMQQLYCDTCERFLADRLVEGNCPTEGCNYDSARGDQCENCGKLLNPTELINPRCKQCKNTPRIR DTNHLFLELPLLKDKLVHYIESTSVAGGWSQNAIQTTNAWLKEGLKPRCITRDLKWGVPVPLEEFKDKVFYVWFDAPIGYVSITSCYTPDWEKWWKNPEN VELYQFMGKDNVPFHTVMFPSTLLGTGENWTLMKTISVTEYLNYEAGKFSKSKGVGVFGNDAKDTNIPVEVWRYYLLTNRPEVSDTLFTWSDLQAKSNNE LLNNLGNFINRVLSFLAKPPGSGYGSVIPDAPGAGSHPLTNKLAEEVGKYVEQYLEAMEKVKLKHGLKTAMSISSEGNAYLQESQFWRLYKEDQPSCSIV IKTSLGLVYLLACLLEPFMPSFSVEVFKQLNMPPEQASLCDEKGDMDKAKRPWEILPAGHKIGTPEPLFKELKIEEVEDYRKKFAGSQADRLEREEVEKA SKLAEELKKKATVGGKKQQTKKPAGEAKSRGAVEPEISITRLDIRVGLIKKAQKHPDADSLYVEEIDLGEGDCRTVVSGLVKYIPLEEMQNRKVCILCNL KPANMRGIKSEAMVLAASSSDHTKVELVDPPQSAVVGERVTFPGFEGEPDDVLNPKKKVWETLQVDLQTNSDLVACYKDIPLTTSAGVCKVATINNGSIR

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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
AT4G13780			methionine--tRNA ligase, putat...		Potri.001G317500 [exp]	0	1
AT4G02940			oxidoreductase, 2OG-Fe(II) oxy...		Potri.014G137700 [exp]	2.82	0.8699
AT2G32700		MUM1, LUH	MUCILAGE-MODIFIED 1, LEUNIG_ho...		Potri.003G178600 [exp]	2.82	0.8865
AT3G22170	FAR1_related	FHY3	far-red elongated hypocotyls 3...		Potri.006G020700 [exp]	3.60	0.8899	Pt-FHY3.2
AT3G06810		IBR3	IBA-RESPONSE 3, acyl-CoA dehyd...		Potri.008G219000 [exp]	5.09	0.8371
AT2G17410	ARID		ARID/BRIGHT DNA-binding domain...		Potri.001G456500 [exp]	8.83	0.8225
AT5G16270		SYN4, ATRAD21.3	ARABIDOPSIS HOMOLOG OF RAD21 3...		Potri.008G078500 [exp]	8.83	0.8854
AT4G24690		AtNBR1	Arabidopsis thaliana next to B...		Potri.015G084000 [exp]	9.00	0.8527
AT1G65730		YSL7	YELLOW STRIPE like 7 (.1)		Potri.004G069200 [exp]	9.00	0.7872
AT4G15090	FAR1_related	FAR1	FAR-RED IMPAIRED RESPONSE 1, F...		Potri.006G020600 [exp]	9.48	0.8524
AT1G80490		TPR1	TOPLESS-related 1 (.1.2)		Potri.006G257900 [exp]	9.74	0.8659

Compare expression of checked genes

Potri.001G317500 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.