Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-UBP3.1
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT4G39910 681 / 0 ATUBP3 ubiquitin-specific protease 3 (.1) AT2G22310 678 / 0 ATUBP4 ubiquitin-specific protease 4 (.1.2) AT4G24560 134 / 3e-34 UBP16 ubiquitin-specific protease 16 (.1) AT3G14400 134 / 3e-34 UBP25 ubiquitin-specific protease 25 (.1) AT5G57990 132 / 1e-33 UBP23 ubiquitin-specific protease 23 (.1) AT5G65450 128 / 3e-32 UBP17 ubiquitin-specific protease 17 (.1) AT4G31670 122 / 3e-30 UBP18 ubiquitin-specific protease 18 (.1) AT2G24640 117 / 5e-29 UBP19 ubiquitin-specific protease 19 (.1.2) AT1G17110 117 / 1e-28 UBP15 ubiquitin-specific protease 15 (.1.2) AT4G17895 110 / 5e-26 UBP20 ubiquitin-specific protease 20 (.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.005G074900 [exp] 756 / 0 AT4G39910 678 / 0.0 ubiquitin-specific protease 3 (.1) Potri.018G107500 [exp] 144 / 2e-37 AT5G57990 580 / 0.0 ubiquitin-specific protease 23 (.1) Potri.006G185200 [exp] 142 / 5e-37 AT5G57990 620 / 0.0 ubiquitin-specific protease 23 (.1) Potri.011G112800 [exp] 130 / 5e-33 AT3G14400 690 / 0.0 ubiquitin-specific protease 25 (.1) Potri.001G394600 [exp] 126 / 9e-32 AT3G14400 653 / 0.0 ubiquitin-specific protease 25 (.1) Potri.005G156900 [exp] 126 / 1e-31 AT4G24560 639 / 0.0 ubiquitin-specific protease 16 (.1) Potri.002G081600 [exp] 126 / 1e-31 AT3G49600 1251 / 0.0 ubiquitin-specific protease 26 (.1) Potri.018G009500 [exp] 124 / 6e-31 AT2G24640 686 / 0.0 ubiquitin-specific protease 19 (.1.2) Potri.003G092400 [exp] 124 / 6e-31 AT4G17895 358 / 2e-112 ubiquitin-specific protease 20 (.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 Lus10041705 [exp] 733 / 0 AT4G39910 682 / 0.0 ubiquitin-specific protease 3 (.1) Lus10024043 [exp] 733 / 0 AT4G39910 682 / 0.0 ubiquitin-specific protease 3 (.1) Lus10014333 [exp] 704 / 0 AT4G39910 643 / 0.0 ubiquitin-specific protease 3 (.1) Lus10026041 [exp] 530 / 0 AT4G39910 481 / 8e-172 ubiquitin-specific protease 3 (.1) Lus10036607 [exp] 136 / 5e-35 AT5G57990 536 / 5e-178 ubiquitin-specific protease 23 (.1) Lus10035825 [exp] 135 / 9e-35 AT5G57990 537 / 3e-178 ubiquitin-specific protease 23 (.1) Lus10009273 [exp] 133 / 7e-34 AT4G24560 585 / 0.0 ubiquitin-specific protease 16 (.1) Lus10032623 [exp] 125 / 4e-31 AT5G46740 366 / 1e-110 ubiquitin-specific protease 21 (.1) Lus10043127 [exp] 124 / 6e-31 AT5G46740 362 / 2e-115 ubiquitin-specific protease 21 (.1) Lus10005591 [exp] 124 / 9e-31 AT3G14400 639 / 0.0 ubiquitin-specific protease 25 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0125 [poplar] [flax] Peptidase_CA PF00443 [poplar] [flax] UCH Ubiquitin carboxyl-terminal hydrolase
Representative CDS sequence Show only first row Show all	>Potri.007G093600.1 pacid=42765623 polypeptide=Potri.007G093600.1.p locus=Potri.007G093600 ID=Potri.007G093600.1.v4.1 annot-version=v4.1 ATGGGTGCAGCAGGTTCTAAACTCGAGAAAGCTTTAGGCGACCAGTTTCCTGAGGGCGAACGATACTTCGGCCTCGAGAATTTCGGCAACACTTGTTACT GTAATAGCGTCTTGCAGGCACTTTACTTTTGTGCACCATTTCGAGAACAGTTGTTAGAATATTATGCTAATAGTAAAAATATTGGGGATGCTGAAGAGAA TCTCTTGACTTGCTTGGCAGACTTATTTACTCAGATAAGTTCACAGAAGAAGAAAACAGGTGTCATTGCTCCAAAGCGTTTCGTACAGAGGTTGAAAAAA CAAAATGAACTTTTCCGAAGCTATATGCACCAGGATGCACATGAGTTTTTGAATTTTTTGCTTAATGAACTGGTTGACATCCTGGAGAAAGAAGCCCAAG CTGTTAAAAGTGAAACTGAAACCTCTTCCCCACCTGAAAAAACTGCAAATGGACCAAAGCATGCTCAGGCAAATGGTGTTTCAAAGGAGCCTTTGGTTAC CTGGGTGCACAAAAATTTTCAGGGAATACTTACCAATGAGACAAGGTGCTTGCAATGTGAGACTGTGACAGCAAGAGATGAAACGTTTTTTGACTTGAGC CTTGATATTGAACAAAACAGTTCCATAACAAGCTGCTTGAAGAATTTTAGTTCCACAGAGACTTTGAATGCAGAGGATAAGTTTTTCTGTGACAAGTGCT GCAGTTTGCAAGAAGCACAAAAGAGGATGAAGATAAAGAAGCCTCCTCATATCTTGGTCATCCATTTGAAGAGGTTTAAATACATTGAGCAGCTTGGTCG GTACAAGAAATTGTCTTACCGAGTTGTCTTCCCACTTGAGCTGAAGCTGAGCAATACTGTGGAAGATGCAGATATAGAATACTCTCTATTTGCCGTTGTT GTCCATGTGGGAAGTGGACCTAATCACGGGCACTATGTGAGCCTTGTGAAGAGCCACAACCACTGGTTATTTTTCGATGATGAAAATGTTGAGATGATTG ACGAGTCTGCTGTGCAGACATTTTTTGGGTCAGCGCAGGAATATTCAAGTAATACGGATCACGGGTATATCTTATTTTACGAGAGCATTGGTGCTAGTAA CAACAAGAGTTGA
AA sequence Show only first row Show all	>Potri.007G093600.1 pacid=42765623 polypeptide=Potri.007G093600.1.p locus=Potri.007G093600 ID=Potri.007G093600.1.v4.1 annot-version=v4.1 MGAAGSKLEKALGDQFPEGERYFGLENFGNTCYCNSVLQALYFCAPFREQLLEYYANSKNIGDAEENLLTCLADLFTQISSQKKKTGVIAPKRFVQRLKK QNELFRSYMHQDAHEFLNFLLNELVDILEKEAQAVKSETETSSPPEKTANGPKHAQANGVSKEPLVTWVHKNFQGILTNETRCLQCETVTARDETFFDLS LDIEQNSSITSCLKNFSSTETLNAEDKFFCDKCCSLQEAQKRMKIKKPPHILVIHLKRFKYIEQLGRYKKLSYRVVFPLELKLSNTVEDADIEYSLFAVV VHVGSGPNHGHYVSLVKSHNHWLFFDDENVEMIDESAVQTFFGSAQEYSSNTDHGYILFYESIGASNNKS

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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
AT4G39910		ATUBP3	ubiquitin-specific protease 3 ...		Potri.007G093600 [exp]	0	1	Pt-UBP3.1
AT4G09830			Uncharacterised conserved prot...		Potri.002G064800 [exp]	1.00	0.8065
AT3G47670			Plant invertase/pectin methyle...		Potri.001G108200 [exp]	2.23	0.7222
AT4G05050		UBQ11	ubiquitin 11 (.1.2.3.4)		Potri.011G026600 [exp]	3.16	0.7964	Pt-SUBI.7
AT3G01090		AKIN10, SnRK1.1	SNF1-RELATED PROTEIN KINASE 1....		Potri.004G115900 [exp]	3.31	0.7091	Pt-AKIN10.2
AT3G19000			2-oxoglutarate (2OG) and Fe(II...		Potri.009G107550 [exp]	6.48	0.6774
AT4G05320		UBQ10	polyubiquitin 10 (.1.2.3.4.5.6...		Potri.001G418500 [exp]	10.39	0.7122
AT3G18820		RAB71, AtRABG3f...	RAB GTPase homolog G3F (.1)		Potri.004G153400 [exp]	10.95	0.7139	Pt-ACT2.2
AT4G01840		KCO5, ATTPK5, A...	Ca2+ activated outward rectify...		Potri.014G113700 [exp]	10.95	0.7104
AT4G17960			unknown protein		Potri.001G143600 [exp]	15.68	0.7460
AT1G26830		CUL3A, ATCUL3A,...	cullin 3A, cullin 3 (.1)		Potri.008G148300 [exp]	17.17	0.6400	CUL3.1

Compare expression of checked genes

Potri.007G093600 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.