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 AT4G30890 577 / 0 UBP24 ubiquitin-specific protease 24 (.1.2.3) AT5G57990 112 / 9e-26 UBP23 ubiquitin-specific protease 23 (.1) AT3G14400 107 / 2e-24 UBP25 ubiquitin-specific protease 25 (.1) AT1G17110 105 / 1e-23 UBP15 ubiquitin-specific protease 15 (.1.2) AT4G39910 99 / 2e-22 ATUBP3 ubiquitin-specific protease 3 (.1) AT2G24640 100 / 3e-22 UBP19 ubiquitin-specific protease 19 (.1.2) AT2G22310 99 / 3e-22 ATUBP4 ubiquitin-specific protease 4 (.1.2) AT5G46740 100 / 5e-22 UBP21 ubiquitin-specific protease 21 (.1) AT4G17895 98 / 2e-21 UBP20 ubiquitin-specific protease 20 (.1) AT4G24560 97 / 7e-21 UBP16 ubiquitin-specific protease 16 (.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.011G095200 [exp] 119 / 6e-28 AT1G17110 799 / 0.0 ubiquitin-specific protease 15 (.1.2) Potri.001G378900 [exp] 112 / 8e-26 AT1G17110 848 / 0.0 ubiquitin-specific protease 15 (.1.2) Potri.011G112800 [exp] 109 / 4e-25 AT3G14400 690 / 0.0 ubiquitin-specific protease 25 (.1) Potri.018G009500 [exp] 107 / 3e-24 AT2G24640 686 / 0.0 ubiquitin-specific protease 19 (.1.2) Potri.001G394600 [exp] 105 / 9e-24 AT3G14400 653 / 0.0 ubiquitin-specific protease 25 (.1) Potri.007G093600 [exp] 103 / 1e-23 AT4G39910 679 / 0.0 ubiquitin-specific protease 3 (.1) Potri.018G107500 [exp] 104 / 3e-23 AT5G57990 580 / 0.0 ubiquitin-specific protease 23 (.1) Potri.002G104800 [exp] 102 / 2e-22 AT4G24560 551 / 7e-179 ubiquitin-specific protease 16 (.1) Potri.006G185200 [exp] 102 / 2e-22 AT5G57990 620 / 0.0 ubiquitin-specific protease 23 (.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 Lus10019766 [exp] 602 / 0 AT4G30890 520 / 0.0 ubiquitin-specific protease 24 (.1.2.3) Lus10016360 [exp] 589 / 0 AT4G30890 494 / 7e-170 ubiquitin-specific protease 24 (.1.2.3) Lus10035825 [exp] 115 / 1e-26 AT5G57990 537 / 3e-178 ubiquitin-specific protease 23 (.1) Lus10036607 [exp] 113 / 5e-26 AT5G57990 536 / 5e-178 ubiquitin-specific protease 23 (.1) Lus10009273 [exp] 113 / 6e-26 AT4G24560 585 / 0.0 ubiquitin-specific protease 16 (.1) Lus10013726 [exp] 112 / 7e-26 AT3G14400 641 / 0.0 ubiquitin-specific protease 25 (.1) Lus10005591 [exp] 110 / 3e-25 AT3G14400 639 / 0.0 ubiquitin-specific protease 25 (.1) Lus10026918 [exp] 103 / 5e-23 AT2G24640 686 / 0.0 ubiquitin-specific protease 19 (.1.2) Lus10020116 [exp] 102 / 9e-23 AT2G24640 686 / 0.0 ubiquitin-specific protease 19 (.1.2) Lus10032623 [exp] 103 / 1e-22 AT5G46740 366 / 1e-110 ubiquitin-specific protease 21 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0125 [poplar] [flax] Peptidase_CA PF13423 [poplar] [flax] UCH_1 Ubiquitin carboxyl-terminal hydrolase
Representative CDS sequence Show only first row Show all	>Potri.003G202800.1 pacid=42784820 polypeptide=Potri.003G202800.1.p locus=Potri.003G202800 ID=Potri.003G202800.1.v4.1 annot-version=v4.1 ATGAGCGACTCTAAGAAGGTACTGGTATTTGGTTCATTCACTGAAGATGAAACGAAATCGTTGCTGGGAAAGCAATCACCTGGCAAAGTCGAAAAGCCGG TAGAGAAGATAGAACTGCGATTTGGGTCTTTGAATTTTGGAACTGGAATAACTTTTGGTAATTTTGATACCACATTGAATACGCAATTGGCTTCTGCTAA TGGAAATGTTACTTCTCAGTCTAAGAGTTTAGTTATGAAGGAAAAAGATGTGAAGGTTGCCAAGGAAGGTGATGGGGTGTTAGGAAGTCCGCGAGAAAAT GGAAGCATAGGCAATTCGAACCATGGTTCTTCCCTCAGTAATGGTGTGGATGTCTTGAAAACTGAGAGTATCGATTTAACTTCTTTGCACTTGTCTGAGA AGGAAGATGGTCCCGCAAGTCCATTGCAAAGTTCGAGCTTTCATGTCCTTGATAGTGAAGGCATTAAGGATGGGGATCATGATGGGACTACCAATGATTC GTCAATACATGTGAGAAAAGAGGATGTTTGGAAAGCAAATGATGGGCCTCTTCCTGCTGTTAAGAGTTTGCTACCCCGTGGCCTGATTAATACAGGGAAT CTTTGCTTTCTTAATGCGACCCTGCAGGCGCTCTTATCCTGTTCCCCTTTTGTGCAGCTATTGCAGGAGCTTAGAATCCGTGACATCCCTAAGGTTGGCT TTCCTACATTGACTGCATTTTCAGAGTTCGTCTGTGACTTTGACATGCCAACCAGTTCAAACTTGAAAAAAGATGCTGTTGAGACTGGTCGGCCTTTTCG TCCTGCCGTGTTTGAAGCTGTTCTTAAAAATTTCACCCCAGATGTGCCAAATAGCATATCAGGACGGCCAAGGCAGGAAGATGCTCAAGAGTTTCTGAGT TTCATCATGCATCAAATGCATGATGAATTACTTAAGCTTGAAGGACAATCCTCTGGTACGAATGGTTTTAAAACCTCTGTAGTTTCTTCTACAGAAGAAG ATGAATGGGAGACAGTGGGGCCAAAAAACAAATCTGCAGTGACTAGAACACAAAGCTTCATTCCTTCTGAGTTAAGTGATATTTTTGGAGGACAGTTGAG AAGTGTGGTTAAGGCAAGAGGAAACAAAGCTTCTGCAACAGTTCAACCATTTTTGTTGCTCCACCTTGATATTCACCTTGAAGTTGTTCGCACTATCGAG GATGCACTCCATCTGTTCTCTGCACCTGAAAATCTTGAAGGGTACCGGACTTCTGCAATTGGGAAGAGTGGTGTGGTGACTGCAAAAAAATCTGTCAAAA TACAGACACTTTCAAAGATAATGATATTGCACTTGATGCGTTTTAGTTATGGAAGCCAAGGGAGTGCCAAGTTGCTCAAGCCTGTGCACTTTCCTCTTGA ATTCATTCTGAGTCGGGAATTACTTGTTTCCCCATCGACAGAGAGCCGAAAGTATGAACTAGTTGCCACAGTAACTCATCACGGGAGGGAGCCTTCAAAA GGTCATTATACAGCTGATGTGCGCCATTCTAATGGCCAGTGGCTACGTTTTGATGATGCATCTGTCACTGCCATCACAACGAGTAAGGTTTTGCATGACC AGGCTTACGTTCTCTTTTACAAACAAGTTTAG
AA sequence Show only first row Show all	>Potri.003G202800.1 pacid=42784820 polypeptide=Potri.003G202800.1.p locus=Potri.003G202800 ID=Potri.003G202800.1.v4.1 annot-version=v4.1 MSDSKKVLVFGSFTEDETKSLLGKQSPGKVEKPVEKIELRFGSLNFGTGITFGNFDTTLNTQLASANGNVTSQSKSLVMKEKDVKVAKEGDGVLGSPREN GSIGNSNHGSSLSNGVDVLKTESIDLTSLHLSEKEDGPASPLQSSSFHVLDSEGIKDGDHDGTTNDSSIHVRKEDVWKANDGPLPAVKSLLPRGLINTGN LCFLNATLQALLSCSPFVQLLQELRIRDIPKVGFPTLTAFSEFVCDFDMPTSSNLKKDAVETGRPFRPAVFEAVLKNFTPDVPNSISGRPRQEDAQEFLS FIMHQMHDELLKLEGQSSGTNGFKTSVVSSTEEDEWETVGPKNKSAVTRTQSFIPSELSDIFGGQLRSVVKARGNKASATVQPFLLLHLDIHLEVVRTIE DALHLFSAPENLEGYRTSAIGKSGVVTAKKSVKIQTLSKIMILHLMRFSYGSQGSAKLLKPVHFPLEFILSRELLVSPSTESRKYELVATVTHHGREPSK GHYTADVRHSNGQWLRFDDASVTAITTSKVLHDQAYVLFYKQV

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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
AT4G30890		UBP24	ubiquitin-specific protease 24...		Potri.003G202800 [exp]	0	1
AT3G10690		GYRA	DNA GYRASE A (.1)		Potri.010G247000 [exp]	4.00	0.8434
AT5G05680		EMB2789, MOS7	MODIFIER OF SNC1,7, EMBRYO DEF...		Potri.010G189700 [exp]	6.85	0.8609
AT1G28530			unknown protein		Potri.004G051000 [exp]	14.42	0.8103
AT4G10070			KH domain-containing protein (...		Potri.019G072500 [exp]	14.73	0.8292
AT3G55200		AtSAP130a	Arabidopsis thaliana spliceoso...		Potri.010G212100 [exp]	17.66	0.8282
AT4G38890			FMN-linked oxidoreductases sup...		Potri.009G125500 [exp]	18.33	0.8301
AT1G06950		ATTIC110, TIC11...	ARABIDOPSIS THALIANA TRANSLOCO...		Potri.013G154300 [exp]	18.76	0.8372
AT3G02280			Flavodoxin family protein (.1)		Potri.004G101100 [exp]	22.18	0.7848
AT5G45190			Cyclin family protein (.1.2)		Potri.005G097400 [exp]	22.80	0.8310
AT3G12940			2-oxoglutarate (2OG) and Fe(II...		Potri.011G143000 [exp]	25.92	0.7824

Compare expression of checked genes

Potri.003G202800 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.