Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-UBP12.2
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G06600 1954 / 0 AtUBP12, UBP12 ubiquitin-specific protease 12 (.1.2.3) AT3G11910 1929 / 0 AtUBP13, UBP13 ubiquitin-specific protease 13 (.1.2) AT3G58250 141 / 1e-36 TRAF-like family protein (.1) AT3G58270 135 / 2e-34 Arabidopsis phospholipase-like protein (PEARLI 4) with TRAF-like domain (.1), Arabidopsis phospholipase-like protein (PEARLI 4) with TRAF-like domain (.2) AT3G58340 125 / 6e-31 TRAF-like family protein (.1) AT3G58360 124 / 6e-31 TRAF-like family protein (.1) AT3G58210 121 / 8e-30 TRAF-like family protein (.1) AT3G58350 111 / 1e-26 RTM3 RESTRICTED TEV MOVEMENT 3 (.1) AT3G58410 111 / 2e-26 TRAF-like family protein (.1) AT3G27040 110 / 1e-25 Meprin and TRAF (MATH) homology domain-containing 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.016G064100 [exp] 2153 / 0 AT5G06600 1943 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Potri.008G012600 [exp] 1985 / 0 AT5G06600 1909 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Potri.010G245100 [exp] 1981 / 0 AT5G06600 1907 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Potri.001G130700 [exp] 109 / 1e-25 AT3G17380 244 / 2e-79 TRAF-like family protein (.1) Potri.003G103200 [exp] 107 / 6e-25 AT3G17380 251 / 2e-82 TRAF-like family protein (.1) Potri.010G075000 [exp] 112 / 8e-25 AT1G04300 855 / 0.0 TRAF-like superfamily protein (.1.2.3.4) Potri.008G163300 [exp] 111 / 2e-24 AT1G04300 846 / 0.0 TRAF-like superfamily protein (.1.2.3.4) Potri.005G179500 [exp] 106 / 5e-23 AT3G49600 1245 / 0.0 ubiquitin-specific protease 26 (.1) Potri.008G099600 [exp] 101 / 7e-23 AT3G17380 344 / 1e-118 TRAF-like 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 Lus10029309 [exp] 1956 / 0 AT5G06600 1957 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Lus10008949 [exp] 1916 / 0 AT5G06600 1904 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Lus10043456 [exp] 1909 / 0 AT5G06600 1925 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Lus10034130 [exp] 1869 / 0 AT3G11910 1888 / 0.0 ubiquitin-specific protease 13 (.1.2) Lus10028871 [exp] 876 / 0 AT5G06600 1351 / 0.0 ubiquitin-specific protease 12 (.1.2.3) Lus10034129 [exp] 174 / 4e-49 AT5G06600 164 / 2e-46 ubiquitin-specific protease 12 (.1.2.3) Lus10025569 [exp] 153 / 9e-40 AT5G06600 149 / 7e-39 ubiquitin-specific protease 12 (.1.2.3) Lus10019772 [exp] 151 / 1e-36 AT5G50400 287 / 2e-84 ARABIDOPSIS THALIANA PURPLE ACID PHOSPHATASE 27, purple acid phosphatase 27 (.1) Lus10027030 [exp] 128 / 4e-32 AT5G06600 120 / 8e-30 ubiquitin-specific protease 12 (.1.2.3) Lus10013378 [exp] 127 / 2e-29 AT3G43590 256 / 1e-74 zinc knuckle (CCHC-type) family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0389 [poplar] [flax] TRAF PF00917 [poplar] [flax] MATH MATH domain CL0072 [poplar] [flax] Ubiquitin PF12436 [poplar] [flax] USP7_ICP0_bdg ICP0-binding domain of Ubiquitin-specific protease 7 CL0125 [poplar] [flax] Peptidase_CA PF13423 [poplar] [flax] UCH_1 Ubiquitin carboxyl-terminal hydrolase CL0072 [poplar] [flax] Ubiquitin PF14533 [poplar] [flax] USP7_C2 Ubiquitin-specific protease C-terminal
Representative CDS sequence Show only first row Show all	>Potri.006G198300.2 pacid=42769516 polypeptide=Potri.006G198300.2.p locus=Potri.006G198300 ID=Potri.006G198300.2.v4.1 annot-version=v4.1 ATGACTATGATGACTCCTTCACCGTTGGATCAAGAAGACGAGGAGATGCTCGTGCCGCATTCAGATTTAGTTGAAGGCCCACAACCAATAGAAGTGGCAC AAGTGGAGCAAACTAGTACGGTGGAAAATCAGCCAGTGGAGGATCCCCCGTCCATGAAATTTACGTGGACTATTGAGAATTTTACTAGGTTGAACACAAA GAAGCATTATTCCGATGTATTTATTGTTGGCAGTTACAAATGGCGAGTACTGATCTTCCCTAAAGGAAACAATGTGGACCACTTGTCGATGTATTTGGAT GTTGCTGATTCTACGACTTTGCCATATGGATGGAGTAGATATGCGCAATTCAGCTTGGCCGTGGTCAATCAAATTCATAACAAGTACTCAATTAGAAAGG ACACACAACATCAGTTCAACGCAAGAGAGAGTGACTGGGGTTTTACATCTTTCATGCCTCTGAGTGAACTTTATGATCCAAGTAGAGGATATCTAGTGAA CGATACAGTTGTTATTGAAGCTGAAGTTGCTGTCCGTAAGCTTCTAGATTATTGGTCCTATGACTCGAAGAAGGAGACAGGCTATGTAGGACTGAAGAAC CAGGGAGCAACATGTTACATGAACTCTCTCCTACAGACTCAGTACCATATTCCTTACTTCCGAAAGGCTGTGTACCACATGCCAACAACTGAGAATGACA TGCCTACAGGAAGCATTCCATTGGCCCTGCAGAGTTTATTCTATAAGCTTCAATATAATGATACCAGTGTTGCAACAAAGGAACTGACCAAATCTTTTGG CTGGGATACATATGATTCCTTCATGCAACATGATGTGCAAGAACTCAACAGAGTCCTATGTGAGAAGCTAGAGGATAAAATGAAGGGGACTGTTGTGGAG GGGACTATACAGCAGTTGTTTGAGGGTCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGGAAGGAGTCATTTTACGATCTCC AGCTTGATGTGAAAGGTTGTCGAGATGTTTATGCTTCTTTTGACAAATATGTGGAAGTTGAACGGCTTGAGGGTGATAACAAATACCATGCTGAAGAACA TGGTTTGCAGGATGCAAAGAAGGGTGTCTTGTTTATTGACTTCCCCCCTGTTCTTCAACTCCAATTAAAGCGTTTTGAATATGATTTTATGCGTGACACC ATGGTGAAGATTAATGATCGCTATGAATTTCCTCTTCAACTTGACCTGGATAGGGAGAATGGGAAATATTTATCACCTGATGCAGACAGGAGTGTTCGCA ATCTATACACACTTCACAGCGTTTTGGTTCATAGCGGAGGGGTGCATGGTGGACATTATTATGCTTTTATCAGGCCAACCCTCTCTGATCAGTGGTTCAA ATTTGATGATGAACGGGTGACAAAAGAAGATATGAAGAGGGCATTAGAAGAACAGTATGGTGGTGAGGAAGAGCTACCTCAGACCAATCCTGGCTTTAAC AATACTCCATTTAAATTCACAAAATACTCAAATGCATACATGCTTGTGTATATACGGGAAAGTGACAAGGACAAGATAATTTGTAATGTCGATGAGAAAG ATATTGCTGAACACTTGAGGATAAGGCTGAAGAAAGAACAAGAAGAAAAAGAAGACAAGAGAAGATATAAAGCACAAGCTCACCTTTACACAATTATAAA GGTCGCACGAGATGAGGACCTTAAAGAGCAAATTGGAAAGGATATTTATTTTGACCTTGTGGATCATGACAAAGTCCATAACTTCCGGATTCAGAAACAG ATGCAGTTTAGTCTTTTTAAGGAGGAGGTTGCTAAAGAGTTTGGTATACCAGTACAATTTCAGCGATTTTGGATATGGGCAAAGCGCCAAAACCACACAT ATAGGCCAAATCGATCATTGACACCCCAGGAAGAAGCACAATCAGTTGGACAGCTGAGAGAGGTGTCAAATAAGACGCATAATGCTGAATTAAAATTGTT CTTGGAAATCGAGCTTGGACTGGATTTACGTCCCATTGCGCCACCTGAAAAAACTAAAGAAGATATTCTGCTTTTCTTCAAGCTTTATGACCCTGAAAAA CAAGAATTGCGATATGTTGGTAGGCTTTTCGTGAAGAGTTCTGGCAAGCCAATAGAAATTCTAGCAAAGCTCAATCAAATGGCTGGCTTTCCACCCGATG AAGAGATTGAACTTTATGAGGAAATCAAGTTCGAGCCTTGTGTCATGTGTGAACATCTTGATAATAGGGCCTCATTTCGAATAAGTCAGATCGAAGATGG GGACATAATATGCTTTCAGAAATCTCCTCCTCTTGAAAAGGAAGAAGAATGTCGATATCCAGATGTGCCTTCATATTTGGAATATGTGCACAATCGACAG ATAGTTCATTTCCGATCTCTGGAAAAGCCGAAGGAGGATGATTTTTGTCTAGAGTTGTCGAAGGTACATACTTATGATGATGTTGTCGAAAGAGTGGCCC GCCAAATTGGCCTGGATGATCCATCCAAAATCAGGTTGACATCCCACAACTGCTACTCTCAGCAGCCTAAGCCGCAACCAATTAAATATCGAGGAGTGGA GCATCTATCAGATATGTTAGTTCACTACAATCAGACTTCTGATATCTTGTATTACGAAGTTCTGGATATTCCTCTTCCAGAATTGCAAGGTCTAAAAAAT TTGAAAGTTGCTTTCCATCATGCTATTAAAGACGAAGTGGTAATTCATAACATTAGATTGCCTAAACAAAGCACCGTGGGAGATGTGATTAATGAACTTA AAACGAAGGTAGAATTGTCTCACCCAAATGCTGAACTTCGACTGCTTGAAGTTTTCTATCACAAGATTTATAAGATCTTTCCACCCAATGAAAAAATCGA GAATATAAATGATCAGTATTGGACATTACGGGCAGAGGAGATCCCTGAGGAAGAAAAAAATCTTGGTCCCCAAGATCGCCTGATTCACGTGTATCACTTC ACAAAAGAGTCTGGACAGAATCAAATGCAAGTACAGAATTTTGGTGAACCCTTTTTCTTGGTCATCCATGAAGGTGAAACTTTAGCTCAAGTTAAAATGC GCATACAAAAGAAACTGCAGGTCCCTGACGAGGAGTTTGCAAAGTGGAAATTTGCATTTCTGTCGCTGGGTCGTCCAGAGTACTTGCAGGATTCTGATGT TGTGTTCACCCGCTTTCAGAGAAGAGATGTTTATGGCGCTTGGGAGCAGTACCTTGGCTTGGAGCACCCTGATAATACTCCTAAAAGGTCTTATGCAGTT AATCAGAACCGCCACACATTTGAGAAGCCAGTTAAAATATACAATTAG
AA sequence Show only first row Show all	>Potri.006G198300.2 pacid=42769516 polypeptide=Potri.006G198300.2.p locus=Potri.006G198300 ID=Potri.006G198300.2.v4.1 annot-version=v4.1 MTMMTPSPLDQEDEEMLVPHSDLVEGPQPIEVAQVEQTSTVENQPVEDPPSMKFTWTIENFTRLNTKKHYSDVFIVGSYKWRVLIFPKGNNVDHLSMYLD VADSTTLPYGWSRYAQFSLAVVNQIHNKYSIRKDTQHQFNARESDWGFTSFMPLSELYDPSRGYLVNDTVVIEAEVAVRKLLDYWSYDSKKETGYVGLKN QGATCYMNSLLQTQYHIPYFRKAVYHMPTTENDMPTGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVE GTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDT MVKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWFKFDDERVTKEDMKRALEEQYGGEEELPQTNPGFN NTPFKFTKYSNAYMLVYIRESDKDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLKEQIGKDIYFDLVDHDKVHNFRIQKQ MQFSLFKEEVAKEFGIPVQFQRFWIWAKRQNHTYRPNRSLTPQEEAQSVGQLREVSNKTHNAELKLFLEIELGLDLRPIAPPEKTKEDILLFFKLYDPEK QELRYVGRLFVKSSGKPIEILAKLNQMAGFPPDEEIELYEEIKFEPCVMCEHLDNRASFRISQIEDGDIICFQKSPPLEKEEECRYPDVPSYLEYVHNRQ IVHFRSLEKPKEDDFCLELSKVHTYDDVVERVARQIGLDDPSKIRLTSHNCYSQQPKPQPIKYRGVEHLSDMLVHYNQTSDILYYEVLDIPLPELQGLKN LKVAFHHAIKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFPPNEKIENINDQYWTLRAEEIPEEEKNLGPQDRLIHVYHF TKESGQNQMQVQNFGEPFFLVIHEGETLAQVKMRIQKKLQVPDEEFAKWKFAFLSLGRPEYLQDSDVVFTRFQRRDVYGAWEQYLGLEHPDNTPKRSYAV NQNRHTFEKPVKIYN

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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
AT5G06600		AtUBP12, UBP12	ubiquitin-specific protease 12...		Potri.006G198300 [exp]	0	1	Pt-UBP12.2
AT1G55860		UPL1	ubiquitin-protein ligase 1 (.1...		Potri.002G110500 [exp]	5.56	0.7837
AT1G15750		TPL, WSIP1	WUS-INTERACTING PROTEIN 1, TOP...		Potri.013G081300 [exp]	8.12	0.7288
AT1G02080			transcription regulators (.1.2...		Potri.014G058800 [exp]	8.12	0.7817
AT3G13300		VCS	VARICOSE, Transducin/WD40 repe...		Potri.016G002100 [exp]	9.32	0.7732
AT2G26780			ARM repeat superfamily protein...		Potri.001G274500 [exp]	10.39	0.7716
AT1G02890			AAA-type ATPase family protein...		Potri.014G131000 [exp]	12.96	0.7620
AT3G06290		AtSAC3B	yeast Sac3 homolog B, SAC3/GAN...		Potri.010G028200 [exp]	15.87	0.7463
AT5G35980		YAK1	yeast YAK1-related gene 1 (.1....		Potri.013G075300 [exp]	17.88	0.6867
AT4G11270			Transducin/WD40 repeat-like su...		Potri.003G132900 [exp]	21.79	0.7683
AT5G64150			RNA methyltransferase family p...		Potri.018G000850 [exp]	25.98	0.7014

Compare expression of checked genes

Potri.006G198300 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.