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 AT5G61060 914 / 0 HDA5, HDA05, ATHDA5 histone deacetylase 5 (.1.2) AT5G61070 572 / 0 HDA18, ATHDA18 A. THALIANA HISTONE DEACETYLASE OF THE RPD3/HDA1 SUPERFAMILY 18, histone deacetylase of the RPD3/HDA1 superfamily 18 (.1) AT5G61050 273 / 2e-87 histone deacetylase-related / HD-related (.1) AT3G18520 260 / 2e-78 HDA15, ATHDA15 histone deacetylase 15 (.1.2) AT4G33470 163 / 4e-44 HDA14, ATHDA14 histone deacetylase 14 (.1) AT1G08460 145 / 5e-38 HDA8, HDA08, ATHDA8 histone deacetylase 8 (.1) AT4G38130 112 / 5e-26 ATHDA19, ATHD1, RPD3A, HDA19, HD1 ARABIDOPSIS HISTONE DEACETYLASE 19, ARABIDOPSIS HISTONE DEACETYLASE 1, histone deacetylase 1 (.1.2) AT5G63110 102 / 7e-23 RPD3B, CAT1, AXE1, ATHDA6, SIL1, RTS1, HDA6 RNA-MEDIATED TRANSCRIPTIONAL SILENCING 1, histone deacetylase 6 (.1) AT3G44680 93 / 5e-20 HDA09, HDA9 histone deacetylase 9 (.1) AT5G35600 82 / 3e-16 HDA7 histone deacetylase7 (.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.012G060400 [exp] 259 / 1e-77 AT3G18520 637 / 0.0 histone deacetylase 15 (.1.2) Potri.005G064200 [exp] 158 / 2e-42 AT4G33470 622 / 0.0 histone deacetylase 14 (.1) Potri.009G020500 [exp] 144 / 1e-37 AT1G08460 552 / 0.0 histone deacetylase 8 (.1) Potri.012G083800 [exp] 108 / 4e-25 AT5G63110 716 / 0.0 RNA-MEDIATED TRANSCRIPTIONAL SILENCING 1, histone deacetylase 6 (.1) Potri.009G170700 [exp] 108 / 1e-24 AT4G38130 811 / 0.0 ARABIDOPSIS HISTONE DEACETYLASE 19, ARABIDOPSIS HISTONE DEACETYLASE 1, histone deacetylase 1 (.1.2) Potri.004G209800 [exp] 108 / 1e-24 AT4G38130 815 / 0.0 ARABIDOPSIS HISTONE DEACETYLASE 19, ARABIDOPSIS HISTONE DEACETYLASE 1, histone deacetylase 1 (.1.2) Potri.015G082500 [exp] 105 / 5e-24 AT5G63110 728 / 0.0 RNA-MEDIATED TRANSCRIPTIONAL SILENCING 1, histone deacetylase 6 (.1) Potri.001G460000 [exp] 92 / 2e-19 AT3G44680 739 / 0.0 histone deacetylase 9 (.1) Potri.006G230300 [exp] 83 / 9e-17 AT5G26040 575 / 0.0 histone deacetylase 2 (.1.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10034689 [exp] 964 / 0 AT5G61060 876 / 0.0 histone deacetylase 5 (.1.2) Lus10017845 [exp] 963 / 0 AT5G61060 868 / 0.0 histone deacetylase 5 (.1.2) Lus10022906 [exp] 247 / 3e-73 AT3G18520 582 / 0.0 histone deacetylase 15 (.1.2) Lus10024919 [exp] 245 / 4e-73 AT3G18520 622 / 0.0 histone deacetylase 15 (.1.2) Lus10010889 [exp] 170 / 1e-46 AT4G33470 610 / 0.0 histone deacetylase 14 (.1) Lus10001850 [exp] 157 / 4e-42 AT1G08460 558 / 0.0 histone deacetylase 8 (.1) Lus10013343 [exp] 156 / 8e-42 AT1G08460 559 / 0.0 histone deacetylase 8 (.1) Lus10019486 [exp] 114 / 2e-26 AT5G63110 727 / 0.0 RNA-MEDIATED TRANSCRIPTIONAL SILENCING 1, histone deacetylase 6 (.1) Lus10001605 [exp] 110 / 5e-25 AT4G38130 833 / 0.0 ARABIDOPSIS HISTONE DEACETYLASE 19, ARABIDOPSIS HISTONE DEACETYLASE 1, histone deacetylase 1 (.1.2) Lus10012713 [exp] 102 / 4e-23 AT4G33470 508 / 2e-180 histone deacetylase 14 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0302 [poplar] [flax] Arginase PF00850 [poplar] [flax] Hist_deacetyl Histone deacetylase domain
Representative CDS sequence Show only first row Show all	>Potri.004G092900.6 pacid=42796608 polypeptide=Potri.004G092900.6.p locus=Potri.004G092900 ID=Potri.004G092900.6.v4.1 annot-version=v4.1 ATGGGTGAGGTGGAGGAATCCGGTGAAATGAATAGCAGTGAAAGGCTCGTGGGAATAATTTATGATGAGAAGATGTGTAAGCATCATACTCCTGATGGTG ATTCTCATCCAGAGAATCCCAATCGCATTAGGGTTATTTGGAACAAGCTCTTAGCCAATAACATTCCTCAAAGGTGTGTGGTTTTGAGTGGGAAAGAAGC AGAAGATAAATATTTAATGGCCGTTCACTCTGAAAATCATGTTAATTTGATTAGAAATATAAGCTCCAAACAGTTTGATTCACGAAGAAATAGGATTGCT TCAAAACTGAATTCAATTTACTTTAATGAGGGATCATCTGAAGCTGCTTACCATGCGGCCGGCTCCGTTTTAGAGCTTGCTGAGAGAATTGCAAAAGGGG ATTTGAATTCTGGTGCTGCGATTGTTAGGCCTCCTGGACATCATGCTGAATATGATGAGGCGATGGGTTTTTGCCTATTCAATAATGTGGCAGTGGCAGC GAGTTTTCTATTAGATGAAAGACCAGAATTGGGTGTTAAAAAGATTTTGATTGTTGACTGGGATGTTCATCATGGAAATGGCACTCAAAAGACATTTTGG AATGATTCTCGGGTCTTATTTTTCTCTGTTCATAGGCATGAGTTTGGGAGTTTTTACCCAGGGAATGATGATGGCTTTTATACTATGATTGGAGAAGGAC CAGGTACGGGATATAATATAAATGTCCCTTGGGAGCATGCAAGATGTGGGGATGCAGATTATCTTGCTGTTTGGGATCACATCTTGATCCCTGTTGCTAA GAAATTTGATCCTGACATGATTATAGTATCTGCAGGATTTGATGCAGCTGTTGGTGATCCTCTTGGTGGATGTTGTGTCACTCCATATGGATACTCAGTA ATGTTGAAAAAGTTGATGGATTTTGCACAAGGTAAGATTATGTTGGCATTAGAAGGAGGATACAACCTTGATTCTATAGCAAATTCATTTCTTGCATGCA TGAAAGTTCTTCTTGAAGACAAGCCTGTCAGTGGGTCTGTAGAGGCATACCCATTTGAGTCGACATGGCGTGTGATACAAGCGGTTCGCAAGAAATTAAG TCCCTACTGGCCTGCACTTGCAGATGAATTACCATTAAAGTTGACTATTCAAAATGCCCCTCATCCGCATATTCTTATCTCAAACTCTGACTCTGAAGGT GAGGATGAAAAGGCTCCAAATATTGTGTCAGAAATTGTTCAGGAGGTCATGGAACCCTTTTCGAAGCTGAAAGTTGAAGATAACCAAGATCAAGTGGCTA CATCTTCTACCTCTTGGAGATCTGAGCTTTCAAAGATTGACATTTGGTATGCTTCTTTTGGATCAAATATGTGGAAGCCTAGATTCCTATGCTATATTGA AGGTGGTCAGGTAGATGGTATGAAGAAGCCATGTACTGGTTCAATGGACAAAAACCTGCCAAAAGAGATTTTGTGGAAAAATTTCCCACACAGACTATAC TTTGGTCGTGATTCTACACGTACATGGGGCCCTGGGGGAGTTGCTTTTCTTCATCCTGATAATAGTGTTGGTGAAAAAACTTACATGTGCCTGTATAAAA TAACACTAGAGCAGTTCAATGATGTTTTGCTTCAAGAAAATGTATCGAGTTATCAGATGAATTCACCTGTATTTGATTTGGCTGCACTACAGTCTATCAA GAACAAGGGGTCCATTTCTTTGGAGGTTTTCAAGAGCGGCTGGTACCGTAATGTTGTTTACTTGGGAAATGAGCGTGATATTCCTATACTGACTATGACG TGTTCGATTTCTGATGCTGAAAGCTTTAAACTTGGAGAGTTTCCCTTGCGCCGTCCTTCTAAAGAGTATGCCAATACCTTAGTGAAGGGCCTGGTTGAAA GTGGACAACTCTCAGAAGAGGAAGCCATTGCTTACATAGAAGAAGCTTCTTCGAAACCACTGTGTTAG
AA sequence Show only first row Show all	>Potri.004G092900.6 pacid=42796608 polypeptide=Potri.004G092900.6.p locus=Potri.004G092900 ID=Potri.004G092900.6.v4.1 annot-version=v4.1 MGEVEESGEMNSSERLVGIIYDEKMCKHHTPDGDSHPENPNRIRVIWNKLLANNIPQRCVVLSGKEAEDKYLMAVHSENHVNLIRNISSKQFDSRRNRIA SKLNSIYFNEGSSEAAYHAAGSVLELAERIAKGDLNSGAAIVRPPGHHAEYDEAMGFCLFNNVAVAASFLLDERPELGVKKILIVDWDVHHGNGTQKTFW NDSRVLFFSVHRHEFGSFYPGNDDGFYTMIGEGPGTGYNINVPWEHARCGDADYLAVWDHILIPVAKKFDPDMIIVSAGFDAAVGDPLGGCCVTPYGYSV MLKKLMDFAQGKIMLALEGGYNLDSIANSFLACMKVLLEDKPVSGSVEAYPFESTWRVIQAVRKKLSPYWPALADELPLKLTIQNAPHPHILISNSDSEG EDEKAPNIVSEIVQEVMEPFSKLKVEDNQDQVATSSTSWRSELSKIDIWYASFGSNMWKPRFLCYIEGGQVDGMKKPCTGSMDKNLPKEILWKNFPHRLY FGRDSTRTWGPGGVAFLHPDNSVGEKTYMCLYKITLEQFNDVLLQENVSSYQMNSPVFDLAALQSIKNKGSISLEVFKSGWYRNVVYLGNERDIPILTMT CSISDAESFKLGEFPLRRPSKEYANTLVKGLVESGQLSEEEAIAYIEEASSKPLC

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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
AT5G61060		HDA5, HDA05, AT...	histone deacetylase 5 (.1.2)		Potri.004G092900 [exp]	0	1
AT4G37880			LisH/CRA/RING-U-box domains-co...		Potri.012G127300 [exp]	1.73	0.6798
AT1G53320	TUB	AtTLP7	tubby like protein 7 (.1)		Potri.001G390200 [exp]	3.87	0.6735
AT2G45500			AAA-type ATPase family protein...		Potri.014G071900 [exp]	3.87	0.6534
AT5G05930		ATGC1	ARABIDOPSIS GUANYLYL CYCLASE 1...		Potri.008G062100 [exp]	4.89	0.6488
AT4G31410			Protein of unknown function (D...		Potri.006G275400 [exp]	5.29	0.6521
AT3G61710		AtBECLIN1, ATAT...	BECLIN1, AUTOPHAGY 6 (.1.2.3)		Potri.002G170100 [exp]	6.32	0.6164
AT5G17290		ATG5, APG5, ATA...	AUTOPHAGY 5, autophagy protein...		Potri.017G139700 [exp]	7.87	0.6783
AT4G19860			alpha/beta-Hydrolases superfam...		Potri.012G121596 [exp]	15.09	0.6042
AT1G16180			Serinc-domain containing serin...		Potri.003G186500 [exp]	17.86	0.6123
AT5G20350		TIP1	TIP GROWTH DEFECTIVE 1, Ankyri...		Potri.018G121200 [exp]	18.00	0.6525

Compare expression of checked genes

Potri.004G092900 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.