Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-SIGB.2
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT1G08540 557 / 0 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 216 / 8e-63 SIG6, SIGF, ATSIG6, SOLDAT8 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) AT3G53920 203 / 6e-58 SIG3, SIGC SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) AT5G13730 186 / 6e-53 SIGD, SIG4 sigma factor 4 (.1) AT1G64860 156 / 2e-41 SIGB, SIG2, SIG1, RPOD1, SIGA RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) AT5G24120 140 / 8e-36 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 Potri.019G044200 [exp] 825 / 0 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] 217 / 2e-63 AT2G36990 615 / 0.0 SIGMA FACTOR 6, RNApolymerase sigma-subunit F (.1) Potri.006G234400 [exp] 206 / 4e-59 AT3G53920 417 / 5e-140 SIGMA FACTOR 3, RNApolymerase sigma-subunit C (.1) Potri.009G057200 [exp] 169 / 1e-46 AT5G13730 303 / 2e-99 sigma factor 4 (.1) Potri.019G043300 [exp] 152 / 4e-40 AT1G64860 679 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.013G075400 [exp] 147 / 4e-38 AT1G64860 680 / 0.0 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Potri.012G031100 [exp] 135 / 6e-34 AT5G24120 584 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Potri.015G022100 [exp] 134 / 1e-33 AT5G24120 605 / 0.0 SIGMA FACTOR 5, sigma factor E (.1)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10020325 [exp] 475 / 3e-162 AT1G08540 534 / 0.0 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10013642 [exp] 448 / 2e-152 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] 424 / 4e-143 AT1G08540 520 / 1e-180 SIGMA FACTOR B, RNA POLYMERASE SIGMA SUBUNIT 1, SIGMA FACTOR 2, SIGMA FACTOR 1, RNApolymerase sigma subunit 2 (.1) Lus10005668 [exp] 409 / 2e-137 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] 136 / 2e-33 AT5G24120 547 / 0.0 SIGMA FACTOR 5, sigma factor E (.1) Lus10009541 [exp] 131 / 4e-32 AT1G64860 438 / 2e-147 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10020365 [exp] 99 / 7e-22 AT1G64860 346 / 7e-115 RNApolymerase sigma subunit 2, RNA POLYMERASE SIGMA SUBUNIT 1, sigma factor A (.1.2) Lus10014934 [exp] 71 / 2e-13 AT5G24120 250 / 1e-80 SIGMA FACTOR 5, sigma factor E (.1)
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.013G070500.1 pacid=42810713 polypeptide=Potri.013G070500.1.p locus=Potri.013G070500 ID=Potri.013G070500.1.v4.1 annot-version=v4.1 ATGTCTTGTTTACTGCCACAGTTCAAGTGCCAACCAGACACTTTCTCTGTACATTTTAGAAATCTCCAACATCACGGCACCAACCATACCCAACTCCCAC AATGCGTTTTGTCCTCTGCATCACCATCAACCGCGGTGCTTGATCTGGAGAAGCTGAGATTGCCTTCTTTAGAACCTCATTCAGATTCAATTTCTGCAAA CAGACCGTGGACGTATATAGGGGGAATCGGTCCACAGAAGAAGCCACCCTTTGGAACTAGTTTAGCCGCAGAAACACTTATCGCAAATGATGAGGCTGTA ATTGCTGCTGCTGCTGCTGAAGCAGTTGCTCTTGCAAGAGCTGCTGTCAAGGTTGCGAAAGATGCAGCTGAAATGGCTAAGAATTACTCTTCTATGAAGA AAGAAACAAAAATTCCAATAGCATCTACAACAGATTCCTTCTCATCAATGTGGTCTCTGCTTACTGAAAAAGAACGAGCTGATATAATAGGAGATTCCGT GTCAGCTGAAACTAGATTAAGAGAAGAATATTCCGTGCAATACCCGACCGAAGAATATGATTGTTTAGAACCAACACAGGAAGAACTTGCACTTTTGCAA AAACAGCTTTCGGAGGGTATAGCTGTGCGATCAAAGCGCCAAACAGAAAGAAAAGCTAGACGAGCAAGAGCAGCTGAAAAGGCTGCTGCAAATGTTGTAT CCGTGAAGTCCGGTTCTACCAGCAAGAAAAAGCGTGTGCCCTTGCAAGAAGTAGACCAGTCTGATCCATTGCGCTTTTTTAGAGGAGCCAGCAGCTCTTC CAGGCTTCTCAGCGCTACTGAAGAAGTGGAGTTGTCAGAAGGAATACAGGACCTGCTAAAACTTGAAAGGATTGAGGAGGAGCTGAAGGAGCGATTTGGA GGCGAGCCCAGCTTTGCACAGTGGGCTGCTGCGGCTGGAGTTGATCAGTTAACTTTGAGGAAGCGCTTAAACTATGGCATCCTTTGCAAAGACAAAATGA TAAAATCCAATGTCCGGCTTGTTATTTCAATTGCCAAAAATTATCAGGGAACTGGGATGAATCTCCAAGATCTTGTTCAGGAAGGATGCCGTGGCCTAGT ACGAGGCGCAGAGAAGTTTGATGCATCAAAAGGTTTCAAATTCTCAACATATGCTCACTGGTGGATTAAACAGGCAGTACGCAAGTCACTCTCAGATCGG TCTAGAACAATTCGCTTACCATTTCATATGGTGGATGCAACTTATAGAGTGAAGGAGGCTAGAAAACAATTGTATAGTGAAAATGGAAGACATCCTGATG ATAAAGAAGTTGCAGAGGCAGCTGGGCTCTCGATGAAGAGGCTCAGTGCTGTACTACTAACTCCAAAAGCCCCAAGATCTCTTGACCAGAAGATGGGGTT TAACATGGATCTTAAACTTTCGGAAGTGACTGCAGATCCTGAAGCAGAAACAGCAGAAGATCTGCTAATGAAGGAATTTATGAAAAAGGACCTGGCGAAA GTTCTGGGAAGTCTCAGTCCAAGGGAGAATCAGGTCGTCAGATGGAGATTTGGAATGGAGGATGGGAGGATGAAAACGTTGCAGGAGATTGGGGAGTTGA TGGGTGTCAGTAGGGAAAGAGTTCGGCAAATCGAGCTGAGCGCATTTCGAAAGCTAAAGAACAAGAATAGAACCAAACAGTTGAGGCAGTACATGGTTGC ATAA
AA sequence Show only first row Show all	>Potri.013G070500.1 pacid=42810713 polypeptide=Potri.013G070500.1.p locus=Potri.013G070500 ID=Potri.013G070500.1.v4.1 annot-version=v4.1 MSCLLPQFKCQPDTFSVHFRNLQHHGTNHTQLPQCVLSSASPSTAVLDLEKLRLPSLEPHSDSISANRPWTYIGGIGPQKKPPFGTSLAAETLIANDEAV IAAAAAEAVALARAAVKVAKDAAEMAKNYSSMKKETKIPIASTTDSFSSMWSLLTEKERADIIGDSVSAETRLREEYSVQYPTEEYDCLEPTQEELALLQ KQLSEGIAVRSKRQTERKARRARAAEKAAANVVSVKSGSTSKKKRVPLQEVDQSDPLRFFRGASSSSRLLSATEEVELSEGIQDLLKLERIEEELKERFG GEPSFAQWAAAAGVDQLTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGTGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDR SRTIRLPFHMVDATYRVKEARKQLYSENGRHPDDKEVAEAAGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMKEFMKKDLAK VLGSLSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFRKLKNKNRTKQLRQYMVA

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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
AT1G08540		ATSIG1, SIG1, S...	SIGMA FACTOR B, RNA POLYMERASE...		Potri.013G070500 [exp]	0	1	Pt-SIGB.2
AT5G57930		APO2, EMB1629	embryo defective 1629, ACCUMUL...		Potri.006G183900 [exp]	1.00	0.9953
AT3G01440		PnsL3, PQL2, PQ...	PsbQ-like 2, Photosynthetic ND...		Potri.001G416400 [exp]	2.00	0.9818
AT4G00370		PHT4;4, ANTR2	anion transporter 2, Major fac...		Potri.014G085700 [exp]	3.16	0.9785	ANTR2.2
AT3G51820		PDE325, ATG4, G...	PIGMENT DEFECTIVE 325, UbiA pr...		Potri.006G102100 [exp]	4.24	0.9811
AT3G23700			Nucleic acid-binding proteins ...		Potri.014G148500 [exp]	4.24	0.9784
AT4G37930		SHMT1, STM, SHM...	SERINE HYDROXYMETHYLTRANSFERAS...		Potri.010G254700 [exp]	5.29	0.9787	SHMT7,SHM1.3
AT1G04420			NAD(P)-linked oxidoreductase s...		Potri.008G167400 [exp]	6.70	0.9742
AT1G60000			RNA-binding (RRM/RBD/RNP motif...		Potri.008G172100 [exp]	7.34	0.9774	RNP1.2
AT3G16620		ATTOC120	ARABIDOPSIS THALIANA TRANSLOCO...		Potri.009G131300 [exp]	7.54	0.9728
AT1G32220			NAD(P)-binding Rossmann-fold s...		Potri.001G136900 [exp]	8.00	0.9775

Compare expression of checked genes

Potri.013G070500 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.