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 444 / 1e-150 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 224 / 3e-66 SIG6, SIGF, ATSIG6, SOLDAT8 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) AT3G53920 193 / 1e-54 SIG3, SIGC SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) AT5G13730 151 / 2e-40 SIGD, SIG4 sigma factor 4 (.1) AT1G64860 149 / 5e-39 SIGB, SIG2, SIG1, RPOD1, SIGA RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) AT5G24120 139 / 3e-35 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 Lus10001339 [exp] 904 / 0 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] 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] 400 / 2e-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 / 3e-39 AT5G24120 547 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Lus10009541 [exp] 131 / 3e-32 AT1G64860 438 / 2e-147 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10020365 [exp] 99 / 6e-22 AT1G64860 346 / 7e-115 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10014934 [exp] 76 / 2e-15 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] 511 / 4e-177 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] 502 / 2e-173 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] 238 / 2e-71 AT2G36990 615 / 0.0 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) Potri.006G234400 [exp] 197 / 3e-56 AT3G53920 417 / 5e-140 SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) Potri.009G057200 [exp] 154 / 3e-41 AT5G13730 303 / 2e-99 sigma factor 4 (.1) Potri.013G075400 [exp] 145 / 1e-37 AT1G64860 680 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.015G022100 [exp] 143 / 9e-37 AT5G24120 605 / 0.0 SIGMA FACTOR 5, sigma factor E (.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.012G031100 [exp] 135 / 4e-34 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	>Lus10013642 pacid=23171591 polypeptide=Lus10013642 locus=Lus10013642.g ID=Lus10013642.BGIv1.0 annot-version=v1.0 ATGTCTTCTTGTCTGTTGCCGCAATTCAATTGCCCACCAGATAACTTCTCCTTCCATTCCAGGCCTCTCCAACTCCAACTGCGTCTTCATCATCTTCATC TTCATCTTCAGGGGAAGGATTTGGTTTCTCCAACACACTGCGCTTTGTCAACTACTTCCTCATCTTCTGCTGCTGCTGTGTTCCACTCGGATAAGTTAAG GCTTTCTTCTTCAGAAGCAACTCATTCCAATTCGGTCTTGCCTAGCAAACCATGGACATACGTGGGAGCAGTCAAAGATGAAGCGTTTCAAGCAACTTCA GCTGCAGAAACACTTCTTCCTAATGATGGAGTTGTAGTTTCAGCAGCAGCTGCTGAAGCAATTGCGCTTGCCAAAGCAGCTGTCAAGGTTGCCAAGGATG CAGCGGCTTTGATGGTTAACAACCATGACTCCCTCAAAACAGACACCAACACATATTCTGTTGAGCATGCCATCGTGGAGTCCGATTCCTTGGAGCCGAC ACCTCAGGAACTTCCACTTTTAGATGAACACCTTTCTGAAGATATTGCTGTCAGATCAACAAGGCAATCGGAAAGGAAAGTACGACGAGCTAGAGCAGCT AAAAGGATCAATGTTTCTACAAGCAGTCCAACAATTAGAAGAAAGCGTCGTACCATACGACAAGTAGACCTTTCGGACCCTTTGCGTTATTTAAGAAGAA CTGCAAGCACTTTGAAGCTTCTCACTGCTGCCGAGGAATCAGAATGTTCACAAGGAATACAGGACCTGCTGAAACTTGAAAGGCTTCAAGAGGAGCTGGC GGAGAGATACGGAGAGCCACCCACATTTGCACAATGGGCAGCTGCAGCAGGAGTTGATCAGAAAACGTTGAGGAAGCAATTACACAGTGGTACTCTGTGC AAGGATAAGATGGTTTTGTCAAACATACGGCTCGTCATTGCCATTGCCAAAAAATTTAAAGGAGCTGGGATGAATCTACAAGATCTTGTTCAGGAAGGAT GCAAGGGTCTAATTAAGGCTGCAGAGAAATTTGATGCTTCAAAGGGATGGAGATTCTCGACATATGCTCATTTGTGTATTAAACAGACAGTTCGCAGGTC TCTCTGCGAACAGACCAGGTTAATACGTCTACCGCTTCAGTTGGTGGAGGCATCTTACAAAGTGAGGGAGGCAAAGAGGCGACTGTACAATGAAAATGGG AAGGAGCCCGACGATGAACAAGTTGCAGAGGCAGCTGGGATTTCAATGAAAAGGCTTAAAGCTGTTCTCAAGGCTCCGAAATATATAATGTCTCTTGATC AGACTGTTGCTGTCGATATGAACCTTAAACATTCGGAAGTGATGGCGGATCCAAATGCAGAAACTGCAGAGGAGATTCTGATGAAGCAATTGATGAAGCG GGACCTGGAAGAAGCATTAGGGAGCTTGAAACCAAAAGAAAGCCATGTAATAAGGTTAAGGTTTGGACTGGATGATGGAAGAATGAAGACACTTCAAGAG GTAGGGCATTTGAGTGGAGTGACCAGGGAGTGTATAAGGCAAATCGAAGCAACTGCATTTCAGAAGCTCAAGAGCAAGAATAGGACCAAACAGTTAATGC AGTATGTTGTATCATAG
AA sequence Show only first row Show all	>Lus10013642 pacid=23171591 polypeptide=Lus10013642 locus=Lus10013642.g ID=Lus10013642.BGIv1.0 annot-version=v1.0 MSSCLLPQFNCPPDNFSFHSRPLQLQLRLHHLHLHLQGKDLVSPTHCALSTTSSSSAAAVFHSDKLRLSSSEATHSNSVLPSKPWTYVGAVKDEAFQATS AAETLLPNDGVVVSAAAAEAIALAKAAVKVAKDAAALMVNNHDSLKTDTNTYSVEHAIVESDSLEPTPQELPLLDEHLSEDIAVRSTRQSERKVRRARAA KRINVSTSSPTIRRKRRTIRQVDLSDPLRYLRRTASTLKLLTAAEESECSQGIQDLLKLERLQEELAERYGEPPTFAQWAAAAGVDQKTLRKQLHSGTLC KDKMVLSNIRLVIAIAKKFKGAGMNLQDLVQEGCKGLIKAAEKFDASKGWRFSTYAHLCIKQTVRRSLCEQTRLIRLPLQLVEASYKVREAKRRLYNENG KEPDDEQVAEAAGISMKRLKAVLKAPKYIMSLDQTVAVDMNLKHSEVMADPNAETAEEILMKQLMKRDLEEALGSLKPKESHVIRLRFGLDDGRMKTLQE VGHLSGVTRECIRQIEATAFQKLKSKNRTKQLMQYVVS

---

DESeq2's median of ratios [FLAX]

Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

---

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...		Lus10013642 [exp]	0	1
AT3G16250		PnsB3, NDF4	Photosynthetic NDH subcomplex...		Lus10025809 [exp]	2.8	0.9557
AT5G45680		ATFKBP13	FK506 BINDING PROTEIN 13, FK50...		Lus10006949 [exp]	3.9	0.9589
AT5G66520			Tetratricopeptide repeat (TPR)...		Lus10026006 [exp]	4.6	0.9554
AT1G54500			Rubredoxin-like superfamily pr...		Lus10015945 [exp]	4.9	0.9512
AT5G26820		RTS3, MAR1, ATI...	MULTIPLE ANTIBIOTIC RESISTANCE...		Lus10020698 [exp]	4.9	0.9456
AT4G27390			unknown protein		Lus10038584 [exp]	5.3	0.9461
AT3G16250		PnsB3, NDF4	Photosynthetic NDH subcomplex...		Lus10038292 [exp]	6.6	0.9549
AT3G55250		PDE329	PIGMENT DEFECTIVE 329, unknown...		Lus10008788 [exp]	6.9	0.9379
AT2G21370		XK1, XK-1	XYLULOSE KINASE 1, xylulose ki...		Lus10041956 [exp]	8.1	0.9424
AT5G53850			haloacid dehalogenase-like hyd...		Lus10005542 [exp]	8.1	0.9359

Compare expression of checked genes

Lus10013642 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.