Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser]
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT1G08540 453 / 2e-154 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 223 / 9e-66 SIG6, SIGF, ATSIG6, SOLDAT8 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) AT3G53920 189 / 8e-53 SIG3, SIGC SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) AT5G13730 154 / 2e-41 SIGD, SIG4 sigma factor 4 (.1) AT1G64860 146 / 5e-38 SIGB, SIG2, SIG1, RPOD1, SIGA RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) AT5G24120 143 / 6e-37 ATSIG5, SIG5, SIGE SIGMA FACTOR 5, sigma factor E (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10013642 [exp] 879 / 0 AT1G08540 498 / 4e-172 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10020325 [exp] 464 / 2e-158 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] 399 / 5e-134 AT1G08540 425 / 2e-143 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10038823 [exp] 153 / 4e-39 AT5G24120 547 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Lus10009541 [exp] 129 / 2e-31 AT1G64860 438 / 2e-147 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10020365 [exp] 99 / 5e-22 AT1G64860 346 / 7e-115 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10014934 [exp] 77 / 9e-16 AT5G24120 250 / 1e-80 SIGMA FACTOR 5, sigma factor E (.1)
Poplar homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.013G070500 [exp] 471 / 2e-161 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] 465 / 8e-159 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] 234 / 1e-69 AT2G36990 615 / 0.0 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) Potri.006G234400 [exp] 194 / 6e-55 AT3G53920 417 / 5e-140 SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) Potri.009G057200 [exp] 154 / 2e-41 AT5G13730 303 / 2e-99 sigma factor 4 (.1) Potri.019G043300 [exp] 142 / 1e-36 AT1G64860 679 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.015G022100 [exp] 142 / 2e-36 AT5G24120 605 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Potri.013G075400 [exp] 140 / 1e-35 AT1G64860 680 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.012G031100 [exp] 132 / 5e-33 AT5G24120 584 / 0.0 SIGMA FACTOR 5, sigma factor E (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0123 [flax] [poplar] HTH PF04545 [flax] [poplar] Sigma70_r4 Sigma-70, region 4 CL0123 [flax] [poplar] HTH PF04542 [flax] [poplar] Sigma70_r2 Sigma-70 region 2 CL0123 [flax] [poplar] PF00140 [flax] [poplar] Sigma70_r1_2 Sigma-70 factor, region 1.2 CL0123 [flax] [poplar] HTH PF04539 [flax] [poplar] Sigma70_r3 Sigma-70 region 3
Representative CDS sequence Show only first row Show all	>Lus10001339 pacid=23146563 polypeptide=Lus10001339 locus=Lus10001339.g ID=Lus10001339.BGIv1.0 annot-version=v1.0 ATGTCTTCTTGTCTGTTGCCGCAATTCAAATGCCCACCCGATAATTTCTCCTTCCATTCCAGACCTCTCCAACTCCAACTGCGTCTTCATCATCATCATC ATCAAGGGAAGGATTTGATTTCTCCAACACACTGCGCTTTGTCAACTACTTCCCCATCTTCTACTGCTGCTGTGCTCCACTCGGATAAGTTAAGGCTTTC TTCTTCAGAAGCAACTCATTCCAATTCGGTCGTGCCTAGCAAACCATGGACATACGTGGGAGCAGTCAAAGATGAAGCGTTTCAAGCAACTTCAGCTACA GAAACACTTCTTCCTAATGATGGAGTTGTAGTTTCAGCAGCAGCTGCTGAAGCAATTGCACTTGCCAGAGCAGCAGTCAAGGTTGCCAAGGATGCTGCGG CTTTGATGGTCAACAACCATGACTCCCTCGAAACAGACACCAACACTACTACCACCACATATTCTGTTGAGCATGCCACCGTGCAGTCCGATTCCTTGGA GCCGACACCTCAGGAACTTCCGCATTTAGATGAACATCTTTCTGAAGATATAGCTGTCAGATCAACAAGGCAATCGGAAAGGAAAGTGCGACGAGCAAGA GCAGCTAAAAGGATCAATGTTTCTACAAAATCTAGCAGTCCAACAATTAGAAGAAAGCGCTGTACCACACGACAAGTAGACCTGTCGGACCCTTTGCGTT ATTTGAGAAGAACTGCAAGCACTTTGAAGCTTCTCACTGCTGCTGAGGAATCAGAATGTTCACAAGGAATACAGGACCTGCTGAAACTTGAAAGGCTTCA AGAGGAGCTGGCGGAGAGATACGGAGAGCCACCCACATTTGCACAATGGGCAGCTGCAGCAGGAGTTGATCAGAAGACGTTGAGGAAGCGATTACACAGT GGTACTCTGTGCAAGGATAAGATGGTTTTGTCAAACATACGGCTTGTCATTGCCATTGCCAAAAAATTCAAAGGAGCTGGGATGAATCTACAAGATCTTG TTCAGGAAGGATGCAAGGGTCTAATTAAGGCTGCAGAGAAATTTGATGCTTCAAAGGGCTGGAGATTCTCGACATATGCTCATTTGTGTATTAAACAGAC AGTTCGCAGGTCTCTCTGCGAAGAGTCCAGGTTAATACGTCTACCGCTTCAGTTGGTGGAGGCGTCTTACAAAGTGAGGGAGGCGAAGAGGCGACTGTAC AATGAAAATGGGAAGGAGCCTGACGATGAACAAGTTGCAGAGGCAGCTGGGATTTCGATGAAAAGGCTTAAAGCTGTTCTCAAGGCTCCGAAATATATAA TGTCTCTTGACCAGACTGTTGCTGTCGACATGAACCTTAAACATTCAGAAGTGATGGCGGATCCAAATGCAGTAACTGCAGAGGAGATTCTGATGAAGCA ATTGATGAAGCAGGACCTGGAAGAAGCATTAGGGAGCTTGAAACCAAAAGAAAGCCATGTAATAAGGTTAAGGTTTGGACTGGATGATGGAAGAATGAAG ACACTACAAGAGGTAGGGCATTTGAGTGGAGTGACCAGGGAGTGTATAAGGCAAATCGAAGCAACTGCATTTCAGAAGCTCAAGAGCAAGAAAAGGACCA AACAGTTAATGCAGTATGTTGTCTCATAG
AA sequence Show only first row Show all	>Lus10001339 pacid=23146563 polypeptide=Lus10001339 locus=Lus10001339.g ID=Lus10001339.BGIv1.0 annot-version=v1.0 MSSCLLPQFKCPPDNFSFHSRPLQLQLRLHHHHHQGKDLISPTHCALSTTSPSSTAAVLHSDKLRLSSSEATHSNSVVPSKPWTYVGAVKDEAFQATSAT ETLLPNDGVVVSAAAAEAIALARAAVKVAKDAAALMVNNHDSLETDTNTTTTTYSVEHATVQSDSLEPTPQELPHLDEHLSEDIAVRSTRQSERKVRRAR AAKRINVSTKSSSPTIRRKRCTTRQVDLSDPLRYLRRTASTLKLLTAAEESECSQGIQDLLKLERLQEELAERYGEPPTFAQWAAAAGVDQKTLRKRLHS GTLCKDKMVLSNIRLVIAIAKKFKGAGMNLQDLVQEGCKGLIKAAEKFDASKGWRFSTYAHLCIKQTVRRSLCEESRLIRLPLQLVEASYKVREAKRRLY NENGKEPDDEQVAEAAGISMKRLKAVLKAPKYIMSLDQTVAVDMNLKHSEVMADPNAVTAEEILMKQLMKQDLEEALGSLKPKESHVIRLRFGLDDGRMK TLQEVGHLSGVTRECIRQIEATAFQKLKSKKRTKQLMQYVVS

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DESeq2's median of ratios [FLAX]

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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	HYP	R_s2_CTR	R_s2_Fox	R_s4_CTR	R_s4_Fox	R_r1_CTR	R_r1_Fox	R_r3_CTR	R_r3_Fox	R_r1s2_CTR	R_r1s2_Fox	R_r3s2_CTR	R_r3s2_Fox	R_s6_CTR	R_s6_Al4	R_s6_Al12	R_s6_Al24	R_s8_CTR	R_s8_Al4	R_s8_Al12	R_s8_Al24	R_r5_CTR	R_r5_Al4	R_r5_Al12	R_r5_Al24	R_r7_CTR	R_r7_Al4	R_r7_Al12	R_r7_Al24	LEAF_N	LEAF_P	LEAF_NPK	SAM	AR_Bet	AR_rdf	cPAR	TOP_Bet	TOP_rdf	iFIBa	iFIBb	MID_Bet	MID_rdf	tFIBa	tFIB_Gr	tFIB_Li	tFIB_Bi	tFIBb	tFIBb_PUL8	tFIBb_PUL24	tFIBb_PUL96	tFIBb_OPP8	tFIBb_OPP24	tFIBb_OPP96	sXYLa	sXYLb	sXYLb_PUL8	sXYLb_PUL24	sXYLb_PUL96	sXYLb_OPP8	sXYLb_OPP24	sXYLb_OPP96
AT1G08540		ATSIG1, SIG1, S...	SIGMA FACTOR B, RNA POLYMERASE...		Lus10001339 [exp]	0	1
AT4G27800		TAP38, PPH1	PROTEIN PHOSPHATASE 1, thylako...		Lus10022384 [exp]	1.0	0.9380
AT3G55250		PDE329	PIGMENT DEFECTIVE 329, unknown...		Lus10008788 [exp]	2.8	0.9368
AT4G13670		PTAC5	plastid transcriptionally acti...		Lus10000759 [exp]	3.0	0.9361
AT3G55250		PDE329	PIGMENT DEFECTIVE 329, unknown...		Lus10022229 [exp]	7.5	0.9298
AT4G25170			Uncharacterised conserved prot...		Lus10009654 [exp]	7.5	0.9288
AT1G54500			Rubredoxin-like superfamily pr...		Lus10015945 [exp]	8.9	0.9351
AT5G04490		VTE5	vitamin E pathway gene 5 (.1)		Lus10028835 [exp]	9.1	0.8991
AT1G08540		ATSIG1, SIG1, S...	SIGMA FACTOR B, RNA POLYMERASE...		Lus10013642 [exp]	12.2	0.9333
AT3G14420			Aldolase-type TIM barrel famil...		Lus10005590 [exp]	13.0	0.9313
AT5G22800		EMB86, EMB263, ...	EMBRYO DEFECTIVE 86, EMBRYO DE...		Lus10003337 [exp]	14.7	0.9270

Compare expression of checked genes

Lus10001339 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.