Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-SOM1.1,CHR905
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G66750 1047 / 0 CHR01, CHA1, SOM1, CHR1, SOM4, DDM1, ATDDM1 SOMNIFEROUS 1, DECREASED DNA METHYLATION 1, chromatin remodeling 1 (.1) AT5G18620 461 / 1e-148 CHR17 chromatin remodeling factor17 (.1.2) AT3G06400 455 / 2e-146 CHR11 chromatin-remodeling protein 11 (.1.2.3) AT5G19310 418 / 4e-132 Homeotic gene regulator (.1) AT3G06010 405 / 4e-127 ATCHR12 Homeotic gene regulator (.1) AT2G13370 375 / 7e-113 CHR5 chromatin remodeling 5 (.1) AT2G28290 377 / 8e-113 CHR3, SYD SPLAYED, CHROMATIN REMODELING COMPLEX SUBUNIT R 3, P-loop containing nucleoside triphosphate hydrolases superfamily protein (.1.2.3) AT2G25170 336 / 7e-100 CKH2, SSL2, GYM, CHD3, PKL, CHR6 SUPPRESSOR OF SLR 2, GYMNOS, CYTOKININ-HYPERSENSITIVE 2, chromatin remodeling factor CHD3 (PICKLE) (.1) AT4G31900 333 / 1e-99 PKR2 PICKLE RELATED 2, chromatin remodeling factor, putative (.1.2) AT2G44980 322 / 5e-98 ASG3 ALTERED SEED GERMINATION 3, SNF2 domain-containing protein / helicase domain-containing protein (.1.2)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.007G026700 [exp] 1248 / 0 AT5G66750 993 / 0.0 SOMNIFEROUS 1, DECREASED DNA METHYLATION 1, chromatin remodeling 1 (.1) Potri.010G021400 [exp] 443 / 1e-141 AT3G06400 1748 / 0.0 chromatin-remodeling protein 11 (.1.2.3) Potri.008G205600 [exp] 442 / 2e-141 AT3G06400 1724 / 0.0 chromatin-remodeling protein 11 (.1.2.3) Potri.019G129740 [exp] 372 / 4e-125 AT5G66750 270 / 6e-86 SOMNIFEROUS 1, DECREASED DNA METHYLATION 1, chromatin remodeling 1 (.1) Potri.010G091200 [exp] 397 / 8e-124 AT3G06010 1408 / 0.0 Homeotic gene regulator (.1) Potri.008G149900 [exp] 392 / 1e-121 AT3G06010 1485 / 0.0 Homeotic gene regulator (.1) Potri.009G047800 [exp] 382 / 5e-115 AT2G13370 2129 / 0.0 chromatin remodeling 5 (.1) Potri.001G253400 [exp] 382 / 6e-115 AT2G13370 2206 / 0.0 chromatin remodeling 5 (.1) Potri.008G195900 [exp] 370 / 2e-110 AT2G28290 1440 / 0.0 SPLAYED, CHROMATIN REMODELING COMPLEX SUBUNIT R 3, P-loop containing nucleoside triphosphate hydrolases superfamily protein (.1.2.3)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10041735 [exp] 1093 / 0 AT5G66750 1069 / 0.0 SOMNIFEROUS 1, DECREASED DNA METHYLATION 1, chromatin remodeling 1 (.1) Lus10024019 [exp] 1054 / 0 AT5G66750 1034 / 0.0 SOMNIFEROUS 1, DECREASED DNA METHYLATION 1, chromatin remodeling 1 (.1) Lus10033967 [exp] 448 / 1e-138 AT5G18620 1650 / 0.0 chromatin remodeling factor17 (.1.2) Lus10010522 [exp] 392 / 2e-122 AT3G06010 1358 / 0.0 Homeotic gene regulator (.1) Lus10034064 [exp] 392 / 4e-122 AT3G06010 1422 / 0.0 Homeotic gene regulator (.1) Lus10022423 [exp] 374 / 4e-112 AT2G13370 2250 / 0.0 chromatin remodeling 5 (.1) Lus10009711 [exp] 367 / 3e-110 AT2G13370 2115 / 0.0 chromatin remodeling 5 (.1) Lus10012798 [exp] 365 / 9e-109 AT2G28290 1549 / 0.0 SPLAYED, CHROMATIN REMODELING COMPLEX SUBUNIT R 3, P-loop containing nucleoside triphosphate hydrolases superfamily protein (.1.2.3) Lus10041019 [exp] 335 / 2e-99 AT2G25170 1776 / 0.0 SUPPRESSOR OF SLR 2, GYMNOS, CYTOKININ-HYPERSENSITIVE 2, chromatin remodeling factor CHD3 (PICKLE) (.1) Lus10005339 [exp] 333 / 2e-98 AT2G25170 1787 / 0.0 SUPPRESSOR OF SLR 2, GYMNOS, CYTOKININ-HYPERSENSITIVE 2, chromatin remodeling factor CHD3 (PICKLE) (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0023 [poplar] [flax] P-loop_NTPase PF00271 [poplar] [flax] Helicase_C Helicase conserved C-terminal domain CL0023 [poplar] [flax] P-loop_NTPase PF04851 [poplar] [flax] ResIII Type III restriction enzyme, res subunit
Representative CDS sequence Show only first row Show all	>Potri.019G129900.1 pacid=42774210 polypeptide=Potri.019G129900.1.p locus=Potri.019G129900 ID=Potri.019G129900.1.v4.1 annot-version=v4.1 ATGGGGAGCGAAGTGAAAAGTGAAGCCTCTGCTGATTCTCCTACTTCCGTTCTTGAAGACGAGGAGCAATGCAATTTGAAAGTAGAAGAAGAGGTGTTTG TGGAAGCAAAAAATGGGGACGCGTCTCTTATATCAATATCTATGGCGGAGGAGGAAGAGAAGCTGTTGAAATCCAGGATGAAAGAAGAAGAGATAGAAAA AGCGGCGGCGGAGGAAGCTCAATTGGATGAAAGCCAGTTTAATAGATTGGACCAGCTTTTAACTCAAACTCAGCTCTATTCAGAGTTTCTGCTGGAAAAG ATTGATCAAATCACTGCTAATGGAGCGGAGCAAGAGAGTGAACCTGTCGAGCAGAAAAAGAGAGGTCGTGGATCAAAAAGAAAAGCCGCTGCGCAATACA ATTCTAGGAAAGCCAAGAGAGCAGTTACAGCAATGCTTACAAGATCAAAAGAAGTTGACAAGGTTGAGGATGCAAATTTGACTGAGGAAGAAAGAGCTGA GAAAGAGCAGAGAGAACTTGTACCTTTGCTAACTGGTGGGAGGTTGAAATCTTATCAGATTAAAGGTGTGAAATGGTTGATCTCTCTCTGGACAAATGGG CTCAATGGGATCCTTGCAGATCAAATGGGGCTCGGAAAGACTATCCAAACAATTGGTTTCCTAGCACATCTGAAAGGGAATGGTTTAAATGGACCCTATA TGGTTATTGCCCCTCTTTCCACTCTCTCAAATTGGGTGAATGAGATTTCAAGGTTTGCTCCTTCTATGGACTCAATTATCTACCACGGTAGCAAGAAGCA GAGGGATGAGATAAGGAGGAAGCACATGCCCAGATCAATTGGCTCCAAATTCCCAATTATTGTTACTTCCTATGAGATTGCATTATCGGATGCAAAAAAG TATTTGAGGCATTACCCATGGAAGTATGTTGTGGTTGATGAGGGGCACCGGTTGAAAAATTCAAAATGCAAACTGCTGAAGGAGTTGAAATACTTGCACG TGGACAATAAGCTCTTATTAACTGGGACACCTCTGCAAAACAATTTGGCTGAGCTTTGGTCACTGTTGAATTTCATTTTGCCTGATATTTTCCAATCCCA TGAAGAATTTGAGTCATGGTTTGATCTGTCAGGAAAGTGCAATAATGAAACAATGAAGGAAGAAGTAGAAGAAAGGCGAAGGGCTCAGGCTGTAACCAAA CTCCATGCAATATTGCGTCCCTTTCTCCTACGGAGAATGAAAACTGATGTAGAGCAGATGCTTCCTCGGAAGAAAGAGATCATCTTATATGCTACCCTGA CTGAGCATCAGAAGAAATTCCAGGAGCATTTAATCAATAAGACACTGGAGGACTATTTACGAGAGAAGCTGGATACCGGACGTGGCATGAAAGGAAGGCT TAATAATTTGATGATTCAACTTCGGAAAAATTGCTACCACCCGGATCTCTTAGAGTCTGCCTTTGATGGCTCATATTTCTATCCACCAGTTGAACAGATA GTTGGGAAGTGTGGCAAATTCCAATTGCTGGATAGATTGTTGAATCGTTTGTTTGCACTCCAGCACAAAGTTCTGATTTTCTCCCAGTGGACTAAAATTT TGGATATAATGGACTATTATTTTAGTGAGAAAGGATTTGAAGTTTGTAGAATTGATGGCTCTGTGAAGTTAGATGAAAGGAAGAAACAGATCCAGGAATT CAATGACGAGAACAGTCAGTTTAGGATTTTTCTTCTTAGCACAAGAGCTGGTGGATTGGGTATCAACCTCACTTCAGCTGATACCTGTATCCTGTATGAC AGTGACTGGAACCCTCAAATGGATCTGCAAGCCATGGATAGATGTCACCGAATTGGGCAAACCAAGCCTGTTCATGTTTACAGGCTTACAACAGCTCAGT CTGTTGAGGGTCGTATTTTGAAAAGAGCTTTTAGTAAATTGAAGCTTGAGCATGTGGTCATTGGAAAAGGACAGTTTCATCAAGAGCGAACCAAGTCTAC CGGCACAGATCTCATGGAGGAGGAGATGCTGGCCCTGCTTCGGGATGAAGAAACAGCAGAAGACAAGTTGATACAGACAGATATCAGTGATGAAGATTTA GAGAGGGTGTTGGATCGCAGTGATTTGGTCGTAGGCTCATCATCAGATGACATAGAAAACATGGCTGCCGCTGTTTCAATTCCTCTGAAAGGGCCTGGTT GGGAGGTGGTTGTACCGACTGCCAGTGGAGGCGTGCTCTCTACCCTTAATAGTTAG
AA sequence Show only first row Show all	>Potri.019G129900.1 pacid=42774210 polypeptide=Potri.019G129900.1.p locus=Potri.019G129900 ID=Potri.019G129900.1.v4.1 annot-version=v4.1 MGSEVKSEASADSPTSVLEDEEQCNLKVEEEVFVEAKNGDASLISISMAEEEEKLLKSRMKEEEIEKAAAEEAQLDESQFNRLDQLLTQTQLYSEFLLEK IDQITANGAEQESEPVEQKKRGRGSKRKAAAQYNSRKAKRAVTAMLTRSKEVDKVEDANLTEEERAEKEQRELVPLLTGGRLKSYQIKGVKWLISLWTNG LNGILADQMGLGKTIQTIGFLAHLKGNGLNGPYMVIAPLSTLSNWVNEISRFAPSMDSIIYHGSKKQRDEIRRKHMPRSIGSKFPIIVTSYEIALSDAKK YLRHYPWKYVVVDEGHRLKNSKCKLLKELKYLHVDNKLLLTGTPLQNNLAELWSLLNFILPDIFQSHEEFESWFDLSGKCNNETMKEEVEERRRAQAVTK LHAILRPFLLRRMKTDVEQMLPRKKEIILYATLTEHQKKFQEHLINKTLEDYLREKLDTGRGMKGRLNNLMIQLRKNCYHPDLLESAFDGSYFYPPVEQI VGKCGKFQLLDRLLNRLFALQHKVLIFSQWTKILDIMDYYFSEKGFEVCRIDGSVKLDERKKQIQEFNDENSQFRIFLLSTRAGGLGINLTSADTCILYD SDWNPQMDLQAMDRCHRIGQTKPVHVYRLTTAQSVEGRILKRAFSKLKLEHVVIGKGQFHQERTKSTGTDLMEEEMLALLRDEETAEDKLIQTDISDEDL ERVLDRSDLVVGSSSDDIENMAAAVSIPLKGPGWEVVVPTASGGVLSTLNS

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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
AT5G66750		CHR01, CHA1, SO...	SOMNIFEROUS 1, DECREASED DNA M...		Potri.019G129900 [exp]	0	1	Pt-SOM1.1,CHR905
AT2G36200			P-loop containing nucleoside t...		Potri.016G077800 [exp]	1.73	0.9537
AT5G52910		ATIM	timeless family protein (.1)		Potri.015G024300 [exp]	2.00	0.9479
AT2G23530			Zinc-finger domain of monoamin...		Potri.007G036200 [exp]	2.64	0.9309
AT5G62410		TTN3, ATSMC4, A...	TITAN 3, structural maintenanc...		Potri.001G125000 [exp]	3.46	0.9421
AT2G21790		ATRNR1, RNR1, C...	CRINKLY LEAVES 8, RIBONUCLEOTI...		Potri.007G076700 [exp]	4.47	0.9161
AT1G18090			5'-3' exonuclease family prote...		Potri.015G041400 [exp]	4.47	0.9439
AT3G23890		ATTOPII, TOPII	topoisomerase II (.1.2)		Potri.001G264000 [exp]	6.48	0.9446	TOP2.2
AT1G69770		CMT3	chromomethylase 3 (.1)		Potri.001G009600 [exp]	6.92	0.9285
AT2G45490		ATAUR3	ataurora3 (.1)		Potri.006G080500 [exp]	7.48	0.9220
AT3G09080			Transducin/WD40 repeat-like su...		Potri.006G096400 [exp]	8.77	0.9233

Compare expression of checked genes

Potri.019G129900 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.