Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-LHCB4.2
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT3G08940 449 / 5e-161 LHCB4.2 light harvesting complex photosystem II (.1.2) AT5G01530 434 / 2e-155 LHCB4.1 light harvesting complex photosystem II (.1) AT2G40100 348 / 3e-121 LHCB4.3 light harvesting complex photosystem II (.1.2) AT3G54890 140 / 2e-40 LHCA1 photosystem I light harvesting complex gene 1 (.1.2.3.4) AT4G10340 129 / 1e-35 LHCB5 light harvesting complex of photosystem II 5 (.1) AT1G19150 114 / 3e-30 LHCA2*1, LHCA2*1, LHCA2*1, LHCA2*1, LHCA2*1, LHCA2*1, LHCA2*1, LHCA6, LHCA2*1, LHCA2*1, LHCA2*1, LH photosystem I light harvesting complex gene 6 (.1) AT1G45474 114 / 3e-30 LHCA5 photosystem I light harvesting complex gene 5 (.1.2) AT3G47470 109 / 2e-28 CAB4, LHCA4 light-harvesting chlorophyll-protein complex I subunit A4 (.1) AT3G61470 108 / 4e-28 LHCA2 photosystem I light harvesting complex gene 2 (.1) AT2G34430 105 / 9e-27 LHCB1.4, LHB1B1 light-harvesting chlorophyll-protein complex II subunit B1 (.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.006G099500 [exp] 504 / 0 AT3G08940 474 / 7e-171 light harvesting complex photosystem II (.1.2) Potri.008G067300 [exp] 357 / 8e-125 AT2G40100 420 / 7e-150 light harvesting complex photosystem II (.1.2) Potri.008G041000 [exp] 139 / 6e-40 AT3G54890 395 / 4e-141 photosystem I light harvesting complex gene 1 (.1.2.3.4) Potri.010G221100 [exp] 134 / 4e-38 AT3G54890 392 / 4e-140 photosystem I light harvesting complex gene 1 (.1.2.3.4) Potri.006G139600 [exp] 126 / 7e-35 AT1G19150 393 / 1e-139 photosystem I light harvesting complex gene 6 (.1) Potri.019G063101 [exp] 115 / 3e-30 AT4G10340 409 / 2e-145 light harvesting complex of photosystem II 5 (.1) Potri.003G171500 [exp] 113 / 7e-30 AT3G61470 409 / 5e-146 photosystem I light harvesting complex gene 2 (.1) Potri.001G056700 [exp] 113 / 1e-29 AT3G61470 410 / 3e-146 photosystem I light harvesting complex gene 2 (.1) Potri.015G062200 [exp] 108 / 4e-28 AT3G47470 442 / 2e-159 light-harvesting chlorophyll-protein complex I subunit A4 (.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 Lus10035512 [exp] 429 / 3e-153 AT3G08940 459 / 4e-165 light harvesting complex photosystem II (.1.2) Lus10028299 [exp] 338 / 3e-117 AT2G40100 412 / 7e-147 light harvesting complex photosystem II (.1.2) Lus10040191 [exp] 335 / 3e-116 AT2G40100 412 / 1e-146 light harvesting complex photosystem II (.1.2) Lus10037836 [exp] 326 / 2e-112 AT2G40100 399 / 2e-141 light harvesting complex photosystem II (.1.2) Lus10027786 [exp] 223 / 2e-72 AT3G08940 263 / 2e-88 light harvesting complex photosystem II (.1.2) Lus10040391 [exp] 142 / 4e-41 AT3G54890 371 / 1e-131 photosystem I light harvesting complex gene 1 (.1.2.3.4) Lus10023509 [exp] 139 / 5e-40 AT3G54890 367 / 3e-130 photosystem I light harvesting complex gene 1 (.1.2.3.4) Lus10021730 [exp] 121 / 1e-32 AT1G45474 369 / 2e-130 photosystem I light harvesting complex gene 5 (.1.2) Lus10013778 [exp] 120 / 4e-32 AT4G10340 421 / 6e-150 light harvesting complex of photosystem II 5 (.1) Lus10039156 [exp] 120 / 4e-32 AT4G10340 425 / 1e-151 light harvesting complex of photosystem II 5 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description PF00504 [poplar] [flax] Chloroa_b-bind Chlorophyll A-B binding protein
Representative CDS sequence Show only first row Show all	>Potri.016G115200.1 pacid=42810040 polypeptide=Potri.016G115200.1.p locus=Potri.016G115200 ID=Potri.016G115200.1.v4.1 annot-version=v4.1 ATGGCTGCCACCACAGCTGCTGCCGCTACATCCTCCTTTATTGGAACACGTGTGCCCGACGTCTATTCAAACGCGGGTAGGATCCAAGCCAGGTTCGGAT TTGGCAAGAAAGCACCCAAGAAATCTATTAAGACCATTCCAGACCGCCCACTTTGGTATCCAGGAGCCAAGGCACCTGAGTACCTAGATGGCAGTTTGGT TGGTGATTACGGGTTTGACCCATTTGGGTTGGGCAGACCAGCTGAGTACTTGCAGTTCGAGCTTGACTCTTTGGATCAAAACTTGGCTAAGAATCTGGCT GGAGATATTATTGGGACCCGTACTGAGGTTTCTGATGTGAAGTCAACTCCGTTCCAGCCTTACAGTGAGGTTTTCGGGTTGCAAAGGTTCAGGGAGTGTG AGCTCATTCATGGAAGGTGGGCTATGTTGGCTACTCTCGGTGCTCTCTCAGTCGAGTGGCTCACTGGAGTTACCTGGCAAGATGCTGGAAAGGTGGAATT AGTTGAAGGATCATCATACCTTGGTCAGCCACTACCATTTTCCATTACAACATTGATCTTGATTGAGGTTTTGGTGATTGGATACATTGAATTCCAAAGG AACGCAGAGCTTGACCCAGAGAAAAGGCTCTACCCAGGAGGCAATTTCTTTGATCCTCTTGGCTTAGCTGCTGACCCAGAAAAGAAGGCTACCCTTCAAT TGGCAGAGATCAAGCACGCTCGCCTTGCCATGGTTGCCTTCCTTGGCTTTGCAGTTCAAGCTTGGGTTACAGGAAAAGGCCCCCTCAACAACTGGGCTAC TCACTTGAGTGATCCTCTCCACACGACCATTATTGACACCTTATCCTCATAA
AA sequence Show only first row Show all	>Potri.016G115200.1 pacid=42810040 polypeptide=Potri.016G115200.1.p locus=Potri.016G115200 ID=Potri.016G115200.1.v4.1 annot-version=v4.1 MAATTAAAATSSFIGTRVPDVYSNAGRIQARFGFGKKAPKKSIKTIPDRPLWYPGAKAPEYLDGSLVGDYGFDPFGLGRPAEYLQFELDSLDQNLAKNLA GDIIGTRTEVSDVKSTPFQPYSEVFGLQRFRECELIHGRWAMLATLGALSVEWLTGVTWQDAGKVELVEGSSYLGQPLPFSITTLILIEVLVIGYIEFQR NAELDPEKRLYPGGNFFDPLGLAADPEKKATLQLAEIKHARLAMVAFLGFAVQAWVTGKGPLNNWATHLSDPLHTTIIDTLSS

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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
AT3G08940		LHCB4.2	light harvesting complex photo...		Potri.016G115200 [exp]	0	1	Pt-LHCB4.2
AT3G08940		LHCB4.2	light harvesting complex photo...		Potri.006G099500 [exp]	1.00	0.9932	LHCB4.3,Lhcb4
AT3G54890		LHCA1	photosystem I light harvesting...		Potri.010G221100 [exp]	2.00	0.9906	1
AT3G47470		CAB4, LHCA4	light-harvesting chlorophyll-p...		Potri.015G062200 [exp]	2.44	0.9902	CAB4.1
AT3G56940		CRD1, CHL27, AC...	COPPER RESPONSE DEFECT 1, dica...		Potri.016G025000 [exp]	3.46	0.9787	AT103.1
AT1G21500			unknown protein		Potri.013G128700 [exp]	3.74	0.9693
AT3G56940		CRD1, CHL27, AC...	COPPER RESPONSE DEFECT 1, dica...		Potri.006G027300 [exp]	5.91	0.9758	Pt-AT103.2
AT1G03600		PSB27	photosystem II family protein ...		Potri.005G206200 [exp]	6.92	0.9680
AT1G06680		PSII-P, OEE2, P...	OXYGEN-EVOLVING ENHANCER PROTE...		Potri.005G206700 [exp]	6.92	0.9717	OEE2.1
AT5G67150			HXXXD-type acyl-transferase fa...		Potri.003G057200 [exp]	9.48	0.9677
AT5G18660		PCB2, DVR	PALE-GREEN AND CHLOROPHYLL B R...		Potri.008G204900 [exp]	9.94	0.9652

Compare expression of checked genes

Potri.016G115200 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.