Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-SIGE.3
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G24120 584 / 0 ATSIG5, SIG5, SIGE SIGMA FACTOR 5, sigma factor E (.1) AT1G08540 114 / 1e-26 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 110 / 1e-25 SIG6, SIGF, ATSIG6, SOLDAT8 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) AT1G64860 91 / 4e-19 SIGB, SIG2, SIG1, RPOD1, SIGA RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) AT5G13730 80 / 7e-16 SIGD, SIG4 sigma factor 4 (.1) AT3G53920 64 / 1e-10 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.015G022100 [exp] 798 / 0 AT5G24120 605 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Potri.019G044200 [exp] 129 / 1e-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.013G070500 [exp] 128 / 2e-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.006G125700 [exp] 105 / 6e-24 AT2G36990 615 / 0.0 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) Potri.009G057200 [exp] 96 / 5e-21 AT5G13730 303 / 2e-99 sigma factor 4 (.1) Potri.013G075400 [exp] 85 / 3e-17 AT1G64860 680 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.006G234400 [exp] 85 / 4e-17 AT3G53920 417 / 5e-140 SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) Potri.019G043300 [exp] 84 / 4e-17 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] 501 / 1e-167 AT5G24120 547 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Lus10014934 [exp] 259 / 2e-83 AT5G24120 250 / 1e-80 SIGMA FACTOR 5, sigma factor E (.1) Lus10013642 [exp] 119 / 3e-28 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] 118 / 4e-28 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] 108 / 1e-24 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] 105 / 7e-24 AT1G08540 425 / 2e-143 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10009541 [exp] 78 / 8e-15 AT1G64860 438 / 2e-147 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10020365 [exp] 74 / 1e-13 AT1G64860 346 / 7e-115 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.012G031100.8 pacid=42782918 polypeptide=Potri.012G031100.8.p locus=Potri.012G031100 ID=Potri.012G031100.8.v4.1 annot-version=v4.1 ATGCAACATTTTTGTTTGCAGTGTTTGTGCAGTGAGAAAGTCCTCATACTCTTTCAAAATCTTGTAATAACACAACTTGGCATGGGAGTTGTAAGTGTTT CGAGCTCAGCTTCTCGGACACCACTAGGATTGAGCACAAAGTTTTCAACTTACGGATCTACAGCAAAAAGACCTTTGATTGTAGCATTTAAAGCCAACAA ATCCAACAACACATCTTTGGTTGCACCACATGAGCAAATTCCATTGCCCGTAGAAACAACGAAGGGGAAGAAGAGACTTGGAAAAAGCAAAAAATCTTCG AATAGATTAAAAGCTGTCCGTACTGAAGTTTCTCCATGTACATTGTTAGTGGATTACAATGAAGCTGCTGCGAAACTTGAAAACATATACAAGCTTAGCC CTGGAACTGATACTTCTGATGTGGAAGACGCAAGTGGTGTGATTAGGAGAGGTAGGCAAAGGAAAAGGAAAATTAGTGAAGGTGACAAGGAAACCGAGGA TAGAACTAGTAAAATCATTGTTAGGAACCGGGCAAAGAAGGCTAAACGATTGAGTCTTGAGAAAAGGATTTCTCTGAGGATCAAGAATGAAGAGAAATTG GTGACTTCAGCTGGGAAGAGAAAAGATCGAAAAAATGAAAATGAAAAGATTGATGACCTTGTGAGGGAGTATTCGGCTTCAACTGATTTGGTCAGCTTGG ACTGGAAAAAAATGAAGATACCTCCGGTCCTTACTTCATCAGAGCATGTCTGGTTATTTAAGTTGATGCAGCCTATGAAAGCACTCCTTCAAGTGAAAGA GCATCTGCAAGAAAATCTGGGGGGAGAACCAACTGACGTTGAATTAGCTAAAGCAACAAATATGGATGTGCTCCAAGTAAGAAAGCAAATAGCAGTTGGT CGAGCTGCAAGGAACAAGCTCATTAAGCACAATCTTCGGCTTGTCTTGTTTGTGATCAAAAAATATTTTCAAGACTTTGCAAATGGGACAAAATTTCAAG ATTTTTGTCAGGCGGGAGTGAAGGGACTTATTACAGCAATCGATCGCTTTGAACCCAAAAGGAGATTCCGGCTCTCCACTTATGGGCTATTTTGGATTAG ACATGCCATCATACGATCAATGACACTCTCAAGCTTTACACGCGTTTCGTTTGGCCTGGAATCGATTAGGTCTGAAATCCAGAAAGCAAAACTTGAATTG TGGTTTCAACTTAAAAGACAACCAATGGAGGATGAGATTATTGAAAAAGTTCGGATCTCCCCTGAGAGGTACCATGAAGTTACGAGGGCCTCAAAACCTG TTTTGTCTCTCCATTCAAGACACAAAACAACGCAGGAAGAGTTTATTGGTGGAATTGCTGATGTTGATGGAGGTGATGACCGGAGGCAGTCAGCTCTTCT CAGGCTTGCACTTGATGATGTGCTTGATTCTCTAAAACCAAAGGAGAGCTTGGTGGTCCGACAGAGATACGGGCTTGATGGTAAAGGAGACAGAACATTA GGAGAGATTGCTGGGAACTTAAATATCTCAAGAGAAATGGTCAGGAAGCACGAAGTAAAAGCACTCATGAAGCTCAAACATCCAACTAGAGTGGATTATC TTCGCCGCTATGTTGTCTGA
AA sequence Show only first row Show all	>Potri.012G031100.8 pacid=42782918 polypeptide=Potri.012G031100.8.p locus=Potri.012G031100 ID=Potri.012G031100.8.v4.1 annot-version=v4.1 MQHFCLQCLCSEKVLILFQNLVITQLGMGVVSVSSSASRTPLGLSTKFSTYGSTAKRPLIVAFKANKSNNTSLVAPHEQIPLPVETTKGKKRLGKSKKSS NRLKAVRTEVSPCTLLVDYNEAAAKLENIYKLSPGTDTSDVEDASGVIRRGRQRKRKISEGDKETEDRTSKIIVRNRAKKAKRLSLEKRISLRIKNEEKL VTSAGKRKDRKNENEKIDDLVREYSASTDLVSLDWKKMKIPPVLTSSEHVWLFKLMQPMKALLQVKEHLQENLGGEPTDVELAKATNMDVLQVRKQIAVG RAARNKLIKHNLRLVLFVIKKYFQDFANGTKFQDFCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTLSSFTRVSFGLESIRSEIQKAKLEL WFQLKRQPMEDEIIEKVRISPERYHEVTRASKPVLSLHSRHKTTQEEFIGGIADVDGGDDRRQSALLRLALDDVLDSLKPKESLVVRQRYGLDGKGDRTL GEIAGNLNISREMVRKHEVKALMKLKHPTRVDYLRRYVV

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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.012G031100 [exp]	0	1	Pt-SIGE.3
AT1G64500			Glutaredoxin family protein (....		Potri.003G141800 [exp]	1.00	0.9874
AT5G19875			unknown protein		Potri.001G231300 [exp]	2.00	0.9846
AT5G14570		ATNRT2.7	high affinity nitrate transpor...		Potri.001G348300 [exp]	2.64	0.9786
AT4G17090		CT-BMY, BMY8, B...	BETA-AMYLASE 8, BETA-AMYLASE 3...		Potri.003G085500 [exp]	2.82	0.9806	Pt-BMY.2
AT5G13770			Pentatricopeptide repeat (PPR-...		Potri.008G142900 [exp]	3.00	0.9820
AT1G07010		AtSLP1	Shewenella-like protein phosph...		Potri.009G077900 [exp]	3.16	0.9789
AT1G79160			unknown protein		Potri.011G153600 [exp]	4.24	0.9684
AT4G34740		CIA1, ATASE2, A...	CHLOROPLAST IMPORT APPARATUS 1...		Potri.009G125600 [exp]	4.24	0.9786
AT5G42760			Leucine carboxyl methyltransfe...		Potri.002G260300 [exp]	5.65	0.9757
AT3G46750			unknown protein		Potri.001G243900 [exp]	6.16	0.9559

Compare expression of checked genes

Potri.012G031100 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.