Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT1G48920 243 / 8e-73 ATNUC-L1, PARL1 PARALLEL 1, nucleolin like 1 (.1) AT3G18610 235 / 5e-69 ATNUC-L2, PARLL1, ATRANGAP1 PARALLEL1-LIKE 1, nucleolin like 2 (.1) AT2G16940 70 / 2e-12 Splicing factor, CC1-like (.1.2.3) AT5G41690 69 / 5e-12 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G45100 69 / 5e-12 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G03480 65 / 4e-11 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G73490 60 / 8e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT1G72800 61 / 9e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT4G34110 59 / 8e-09 PABP2, PAB2, ATPAB2 ARABIDOPSIS POLY\(A\) BINDING 2, poly(A) binding protein 2 (.1) AT5G51730 57 / 1e-08 RNA-binding (RRM/RBD/RNP motifs) family protein (.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.005G093100 [exp] 401 / 4e-132 AT1G48920 229 / 9e-67 PARALLEL 1, nucleolin like 1 (.1) Potri.004G177000 [exp] 71 / 1e-12 AT2G16940 538 / 0.0 Splicing factor, CC1-like (.1.2.3) Potri.009G137200 [exp] 67 / 1e-11 AT2G16940 535 / 0.0 Splicing factor, CC1-like (.1.2.3) Potri.007G009800 [exp] 66 / 4e-11 AT5G09880 519 / 9e-180 Splicing factor, CC1-like (.1) Potri.016G090700 [exp] 64 / 5e-11 AT2G37220 302 / 4e-103 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.010G209701 [exp] 62 / 4e-10 AT3G55340 265 / 2e-82 phragmoplastin interacting protein 1 (.1) Potri.012G115100 [exp] 58 / 2e-09 AT5G65260 271 / 5e-93 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.017G059000 [exp] 56 / 2e-09 AT4G13850 134 / 9e-42 glycine rich protein 2, glycine-rich RNA-binding protein 2 (.1.2.3.4) Potri.004G143400 [exp] 58 / 8e-09 AT3G19130 480 / 2e-168 RNA-binding protein 47B (.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 Lus10017403 [exp] 257 / 6e-74 AT3G18610 216 / 5e-59 PARALLEL1-LIKE 1, nucleolin like 2 (.1) Lus10010202 [exp] 247 / 2e-70 AT3G18610 218 / 9e-60 PARALLEL1-LIKE 1, nucleolin like 2 (.1) Lus10034466 [exp] 66 / 5e-11 AT2G16940 569 / 0.0 Splicing factor, CC1-like (.1.2.3) Lus10030327 [exp] 62 / 8e-10 AT3G55340 275 / 9e-85 phragmoplastin interacting protein 1 (.1) Lus10016639 [exp] 58 / 1e-09 AT4G13850 166 / 1e-53 glycine rich protein 2, glycine-rich RNA-binding protein 2 (.1.2.3.4) Lus10009323 [exp] 58 / 1e-09 AT5G65260 268 / 2e-92 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10022551 [exp] 57 / 1e-09 AT4G13850 167 / 7e-54 glycine rich protein 2, glycine-rich RNA-binding protein 2 (.1.2.3.4) Lus10015840 [exp] 57 / 2e-09 AT5G65260 261 / 9e-90 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10032591 [exp] 55 / 1e-08 AT4G13850 157 / 5e-50 glycine rich protein 2, glycine-rich RNA-binding protein 2 (.1.2.3.4) Lus10032509 [exp] 57 / 2e-08 AT5G07440 771 / 0.0 glutamate dehydrogenase 2 (.1.2.3)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0221 [poplar] [flax] RRM PF00076 [poplar] [flax] RRM_1 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
Representative CDS sequence Show only first row Show all	>Potri.007G071100.1 pacid=42766581 polypeptide=Potri.007G071100.1.p locus=Potri.007G071100 ID=Potri.007G071100.1.v4.1 annot-version=v4.1 ATGGGCAAGTCTAGCAAGAAATCAGCTACCAAAGTTGAAGCAGCTCCTGCTGTAATTCCTGCTAAGGCTGGGAAGCAAGGTAAGAACAAGAGGGAAGCAG AAGAAGACTTAGAGAAGATTGTGAGTGCCAAAAAGCAGAAGAAAAATGACGGAGTAGCTCAGGCTGTCCAGAAGGCAAAGGTTGAAACTAAGACCCTGAA AAAGAAGAAACATGAGTCCAGTGATTCTGATGACTCCTCATCGGAGGAAGAAGAGGTTAAGGTTCTGCCAAAGAAGGCAGTGAAGCCAACTAAAACACCT GCCAAAGAATCCAGTGACTCTGAATCAGACTCCGGATCTGAGCTGGAATCTGATGAGGAGCCACCTGTGAAAGCTACTCCTGCCAAGAAGGAGCCAATTG CTGTAAAAAATGGTTCCCATGGTGCTGCTGCTAAGAAGGGAAAGGATGACAGCAGCAGTTCCGAGTCTTCAGAGGATGAATCTTCTGATGATGAGGAAAT TCCCGCAAAGGCTTCTGCTCCTAAGAATGTTCCTACACAACCAGCTACCATTAAAAAGGTTGAATTAAGTGATGACTCTGAAAGCGATTCTGATGATAGT GAATCCACTGATGATGATAAGGGTGCATCTACAAAGGCTGCTTTTCCTAAGAAGGTTCCTGCACCAGCTGCCCAGAAGAAAGCTGATTCAAGTGATGATG ACTCTGATTCCGATGAATCCTCTTCTGAAGATGAGACTCCTGCAGCAAAGGCAGCTGTTGCTTCCAAAAAGCCGTCCTCTGTAACTGAAACAAAGGAATT GAAACAGGCAAAAGCAACTGCTCAAAAGGAAAGTAGCAGTGAAGAGGAGAGTTCCAGTGATGGCTCAGAGAGCGAGGAAGATAGTGAAGATGAAAAGCCA GCAAAGACTCCAAAGAAAAATGACACTGATGTAGAGATGGTTGATGCTGATATAAAGTCTGATGTCAAAACTCCCAAGACGCCTGTTACACCAGTTGCTC ATGAGAATACTGGGTCAAAGACACTTTTTGTTGGAAACCTATCATTTCAAGTTGAACGTGCTGATGTGGAAAATTTCTTTAAAGGGGCTGGGGAAGTTGC TGATGTTCGCTTCGCCTTAGATGCAGATGAGAGGTTTAGGGGCTTTGGCCATGTTGAGTTTACCACAGCTGAAGCAGCACAGAAGGCTCTAAAATTGCAT GGTAATACTTTACTTGGCCGGGATGTCAGACTTGATTTGGCTCGCGAGAAGGGCTCAAATACACCATACAGCAAAGATAGCAGCTCATTCCCGAAGGGAG GGAGTGGTCAATCCCAAACCATTTTTGTCAGGGGATTTGACAAGTCTGCCGGGGAGGATGAGATTAGGAGCTCTCTCCAGGAGCATTTTGGTTCTTGTGG GGAGATTAAAAGGGTATCTATTCCAACTGATTATGATACCGGTGCCATTAAAGGGATGGCTTACTTGGAATTTAATGATGCTGATGCTTTGAGCAAAGCT TTTGAGCTTAATGGAAGTCAACTTGGAGAATACCGCTTAACTGTGGATGAAGCAAAACCAAGGAGTGATAACCGTGACAGTCGGGACAGTGGCCGAGGTC GTGGCAGAGGCAGTGGTGGTAGGGGTCGTGGGGGCCGTTTTGATAGTGGACGTGGGGGCCGTTTTGATAGTGGACGTGGGGGCAGAGGTGGTCGAGGACG TGGGACTCCTTTTAAACCCAGTGTGACCACAGCTGCTTCAGGAAAAAAGAAGACATTTAATGATGACTACTGA
AA sequence Show only first row Show all	>Potri.007G071100.1 pacid=42766581 polypeptide=Potri.007G071100.1.p locus=Potri.007G071100 ID=Potri.007G071100.1.v4.1 annot-version=v4.1 MGKSSKKSATKVEAAPAVIPAKAGKQGKNKREAEEDLEKIVSAKKQKKNDGVAQAVQKAKVETKTLKKKKHESSDSDDSSSEEEEVKVLPKKAVKPTKTP AKESSDSESDSGSELESDEEPPVKATPAKKEPIAVKNGSHGAAAKKGKDDSSSSESSEDESSDDEEIPAKASAPKNVPTQPATIKKVELSDDSESDSDDS ESTDDDKGASTKAAFPKKVPAPAAQKKADSSDDDSDSDESSSEDETPAAKAAVASKKPSSVTETKELKQAKATAQKESSSEEESSSDGSESEEDSEDEKP AKTPKKNDTDVEMVDADIKSDVKTPKTPVTPVAHENTGSKTLFVGNLSFQVERADVENFFKGAGEVADVRFALDADERFRGFGHVEFTTAEAAQKALKLH GNTLLGRDVRLDLAREKGSNTPYSKDSSSFPKGGSGQSQTIFVRGFDKSAGEDEIRSSLQEHFGSCGEIKRVSIPTDYDTGAIKGMAYLEFNDADALSKA FELNGSQLGEYRLTVDEAKPRSDNRDSRDSGRGRGRGSGGRGRGGRFDSGRGGRFDSGRGGRGGRGRGTPFKPSVTTAASGKKKTFNDDY

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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
AT1G48920		ATNUC-L1, PARL1	PARALLEL 1, nucleolin like 1 (...		Potri.007G071100 [exp]	0	1
AT1G48920		ATNUC-L1, PARL1	PARALLEL 1, nucleolin like 1 (...		Potri.005G093100 [exp]	1.00	0.9045
AT1G56110		NOP56	homolog of nucleolar protein N...		Potri.012G095400 [exp]	1.73	0.8603	NOP56.2
AT4G31120		PRMT5, SKB1 ,AT...	PROTEIN ARGININE METHYLTRANSFE...		Potri.018G000500 [exp]	2.82	0.8534
AT3G03060			P-loop containing nucleoside t...		Potri.001G458200 [exp]	2.82	0.8655
AT1G30240			unknown protein		Potri.010G238000 [exp]	3.87	0.8525
AT5G27640		ATTIF3B1, ATEIF...	EUKARYOTIC TRANSLATION INITIAT...		Potri.006G267500 [exp]	4.89	0.8425	Pt-EIF3.6
AT3G51800		ATEBP1, ATG2, E...	A. THALIANA ERBB-3 BINDING PRO...		Potri.016G119700 [exp]	6.00	0.8373
AT5G15550			Transducin/WD40 repeat-like su...		Potri.017G093300 [exp]	7.93	0.8458
AT3G16810		APUM24	pumilio 24 (.1)		Potri.010G005600 [exp]	8.12	0.8477
AT3G02320			N2,N2-dimethylguanosine tRNA m...		Potri.017G099200 [exp]	10.19	0.7888

Compare expression of checked genes

Potri.007G071100 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.