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 AT5G24120 605 / 0 ATSIG5, SIG5, SIGE SIGMA FACTOR 5, sigma factor E (.1) AT1G08540 129 / 6e-32 ATSIG1, SIG1, SIGA, SIG2, SIGB, ABC1, ATSIG2 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) AT2G36990 125 / 1e-30 SIG6, SIGF, ATSIG6, SOLDAT8 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) AT1G64860 86 / 1e-17 SIGB, SIG2, SIG1, RPOD1, SIGA RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) AT5G13730 85 / 2e-17 SIGD, SIG4 sigma factor 4 (.1) AT3G53920 72 / 3e-13 SIG3, SIGC SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.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.012G031100 [exp] 827 / 0 AT5G24120 584 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Potri.013G070500 [exp] 128 / 1e-31 AT1G08540 558 / 0.0 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Potri.019G044200 [exp] 127 / 2e-31 AT1G08540 588 / 0.0 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Potri.006G125700 [exp] 118 / 3e-28 AT2G36990 615 / 0.0 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) Potri.006G234400 [exp] 95 / 2e-20 AT3G53920 417 / 5e-140 SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) Potri.009G057200 [exp] 94 / 2e-20 AT5G13730 303 / 2e-99 sigma factor 4 (.1) Potri.013G075400 [exp] 79 / 3e-15 AT1G64860 680 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.019G043300 [exp] 78 / 4e-15 AT1G64860 679 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.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 Lus10038823 [exp] 528 / 8e-179 AT5G24120 547 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Lus10014934 [exp] 257 / 4e-83 AT5G24120 250 / 1e-80 SIGMA FACTOR 5, sigma factor E (.1) Lus10013642 [exp] 130 / 3e-32 AT1G08540 498 / 4e-172 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10001339 [exp] 129 / 5e-32 AT1G08540 520 / 1e-180 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10020325 [exp] 116 / 2e-27 AT1G08540 534 / 0.0 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10005668 [exp] 114 / 6e-27 AT1G08540 425 / 2e-143 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10020365 [exp] 74 / 1e-13 AT1G64860 346 / 7e-115 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10009541 [exp] 67 / 3e-11 AT1G64860 438 / 2e-147 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0123 [poplar] [flax] HTH PF04539 [poplar] [flax] Sigma70_r3 Sigma-70 region 3 CL0123 [poplar] [flax] HTH PF04542 [poplar] [flax] Sigma70_r2 Sigma-70 region 2 CL0123 [poplar] [flax] HTH PF04545 [poplar] [flax] Sigma70_r4 Sigma-70, region 4
Representative CDS sequence Show only first row Show all	>Potri.015G022100.1 pacid=42774760 polypeptide=Potri.015G022100.1.p locus=Potri.015G022100 ID=Potri.015G022100.1.v4.1 annot-version=v4.1 ATGGGAATTGTAAGTGTTTCGAGCTCAGCTTCTTGGACACCACTAGGATTCAGCACGAAATTTTCAACTTGTAGATCTACGGCAAAGAGGCCATTGATTG TGGCATTTAAAGCAGACAAATCCAACGAAACAGCTTTGGTTGCACCCCACGAGCAAATCCCATTGCCCATAGAAACAACAAAGGAGAAGAAGAGACGTGG TAAAAGCAAAAAATCTTCGGATCGATTAAAAGCTGTCCGTACTGAAGTTTCTCCGTGCACCTTGGGAGTGGATTACAATGAAGCTGCTGCGAAACTTGAA AACATATACAAGCTTAGCCCTGGAACTGACACTTCTGATGTGGAAGATGTAAATGGTGTGATTAGGAGATGTAGGCAACGGAAAAGGAAGACTAGTGAAT GTGAAAAGGAAGATGACGGTAGAACTAGCAAAATAATCGTAAGGAACCAGGCAAAGAAGGCTAAACGATTGAGTCTTCAGAAAAGAATTGCACTGAGGAT CAAGAGTGATGAAAAATTGGTGACTTCAGTTGGGAAGAGAAAAGGTCGAAAGAATGAAAATGAAAAGATTGATGAACTTGTGAGGGAGTATTCTTCTTCA ACTGATTTGGCCAGCTTGGACTGGAAAAAAATGAAGATCCCCCCAGTCCTTACTTCAGCAGAGCATGCCTGGTTATTTAAGTTGATGCAGCCTATGAAAG CATCCCTTCAAGTGAAAGAGCATTTGCAAGAAAATTCGGGGAGAGAACCAACTGAGGGTGAATTAGCTGAGGCAACAGATATGGATGTGCTCCAAGTGAG AAAACAAATAGAGGTTGGTCGAGCTGCAAGGAACAAACTTATTAAGCACAATCTCCGGCTTGTATTGTTTGTGATCAACAAATATTTTCAAGACTATGCA AATGGGCCAAGATATCAAGATCTTTGTCAGGCAGGAGTGAAGGGACTTATGACAGCAATTGATCGCTTCGAACCCAAAAGGAGATTCCGGCTCTCCACTT ATGGGCTGTTTTGGATTAGACATGCCATCATAAGGTCCATGACACTCTCAAGCTTTACACGTGTTTCGTTCGGCCTGGAATCGATAAGATCAGAAATCCA GAAAGCAAAACTTGAATTGTGGTTTCAACTGCTAAGGAAACCAACGGGGGAAGAGATTATTGAAAAAGTAGGGATCTCCATCGAGAGGTACCATGAAGTG ATGAGGGCCTCAAAACCTGTTTTGTCTCTCCATTCGAGACACAAAACAACGCAAGAAGAGTTGATTAGTGGAGTTGCTGATGTCAATGGAGGTGATGACC GGAGGCAATCAGCTCTTCTCAGGCTTGCTCTTGATGATGTGCTAGATTCATTAAAACCAAAGGAGAGCCTGGTGGTCCGTCAGAGATTCGGACTGGATGG TAAAGGGGATAGAACATTAGGAGAGATTGCTGGGAACTTAAATATCTCAAGAGAAATGGTCCGGAAGCACGAAGCTAAAGCACTCATGAAGCTCAAGCAT CCAACGAGAGTGGATTATCTTTGCCGCTATGTTGTCTGA
AA sequence Show only first row Show all	>Potri.015G022100.1 pacid=42774760 polypeptide=Potri.015G022100.1.p locus=Potri.015G022100 ID=Potri.015G022100.1.v4.1 annot-version=v4.1 MGIVSVSSSASWTPLGFSTKFSTCRSTAKRPLIVAFKADKSNETALVAPHEQIPLPIETTKEKKRRGKSKKSSDRLKAVRTEVSPCTLGVDYNEAAAKLE NIYKLSPGTDTSDVEDVNGVIRRCRQRKRKTSECEKEDDGRTSKIIVRNQAKKAKRLSLQKRIALRIKSDEKLVTSVGKRKGRKNENEKIDELVREYSSS TDLASLDWKKMKIPPVLTSAEHAWLFKLMQPMKASLQVKEHLQENSGREPTEGELAEATDMDVLQVRKQIEVGRAARNKLIKHNLRLVLFVINKYFQDYA NGPRYQDLCQAGVKGLMTAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTLSSFTRVSFGLESIRSEIQKAKLELWFQLLRKPTGEEIIEKVGISIERYHEV MRASKPVLSLHSRHKTTQEELISGVADVNGGDDRRQSALLRLALDDVLDSLKPKESLVVRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEAKALMKLKH PTRVDYLCRYVV

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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
AT5G24120		ATSIG5, SIG5, S...	SIGMA FACTOR 5, sigma factor E...		Potri.015G022100 [exp]	0	1
AT1G51920			unknown protein		Potri.001G172850 [exp]	1.41	0.9801
					Potri.015G143150 [exp]	1.73	0.9830
AT3G05880		RCI2A	RARE-COLD-INDUCIBLE 2A, Low te...		Potri.013G001600 [exp]	3.46	0.9577	Pt-RCI2.1
AT3G52740			unknown protein		Potri.004G202900 [exp]	3.87	0.9716
AT5G17230		PSY	PHYTOENE SYNTHASE (.1.2.3)		Potri.002G056800 [exp]	4.47	0.9674
AT4G27030		FADA, FAD4	FATTY ACID DESATURASE 4, fatty...		Potri.001G424700 [exp]	6.32	0.9632
AT2G35840			Sucrose-6F-phosphate phosphohy...		Potri.016G066100 [exp]	7.61	0.9147	Pt-SPP1.2
AT5G65620			Zincin-like metalloproteases f...		Potri.009G151300 [exp]	9.00	0.9467
AT3G52740			unknown protein		Potri.009G163900 [exp]	10.95	0.9446
AT4G11600		LSC803, PHGPX, ...	glutathione peroxidase 6 (.1)		Potri.001G105200 [exp]	14.49	0.9104	PtrcGpx3_1

Compare expression of checked genes

Potri.015G022100 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.