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 AT1G76940 171 / 6e-53 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT1G21320 150 / 7e-45 nucleotide binding;nucleic acid binding (.1.2) AT3G13700 50 / 3e-07 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT2G47580 47 / 4e-06 U1A spliceosomal protein U1A (.1) AT2G42240 46 / 6e-06 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3) AT2G30260 45 / 1e-05 U2B'' U2 small nuclear ribonucleoprotein B (.1) AT1G06960 44 / 3e-05 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.012G019300 [exp] 389 / 5e-139 AT1G76940 167 / 2e-51 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.002G070200 [exp] 192 / 6e-61 AT1G76940 215 / 4e-70 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.006G224900 [exp] 123 / 4e-34 AT1G21320 122 / 2e-33 nucleotide binding;nucleic acid binding (.1.2) Potri.019G121400 [exp] 52 / 6e-08 AT2G30260 305 / 7e-106 U2 small nuclear ribonucleoprotein B (.1) Potri.002G203600 [exp] 51 / 2e-07 AT2G47580 349 / 1e-122 spliceosomal protein U1A (.1) Potri.013G153700 [exp] 49 / 5e-07 AT2G30260 297 / 8e-103 U2 small nuclear ribonucleoprotein B (.1) Potri.007G046600 [exp] 49 / 9e-07 AT2G42240 334 / 4e-115 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3) Potri.003G035000 [exp] 47 / 5e-06 AT3G13700 348 / 3e-121 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.014G127800 [exp] 45 / 2e-05 AT2G47580 347 / 6e-122 spliceosomal protein U1A (.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 Lus10018903 [exp] 180 / 9e-54 AT1G21320 182 / 5e-54 nucleotide binding;nucleic acid binding (.1.2) Lus10028599 [exp] 167 / 4e-51 AT1G21320 206 / 4e-66 nucleotide binding;nucleic acid binding (.1.2) Lus10028598 [exp] 123 / 3e-33 AT1G76940 135 / 9e-38 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10042240 [exp] 48 / 2e-06 AT2G30260 352 / 2e-124 U2 small nuclear ribonucleoprotein B (.1) Lus10026413 [exp] 48 / 2e-06 AT2G30260 350 / 1e-123 U2 small nuclear ribonucleoprotein B (.1) Lus10008424 [exp] 45 / 2e-05 AT2G47580 365 / 4e-129 spliceosomal protein U1A (.1) Lus10003358 [exp] 42 / 0.0001 AT2G47580 367 / 7e-130 spliceosomal protein U1A (.1) Lus10033388 [exp] 41 / 0.0004 AT3G21215 337 / 2e-115 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10034844 [exp] 41 / 0.0006 AT3G21215 370 / 1e-128 RNA-binding (RRM/RBD/RNP motifs) family protein (.1)
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.015G009000.2 pacid=42776260 polypeptide=Potri.015G009000.2.p locus=Potri.015G009000 ID=Potri.015G009000.2.v4.1 annot-version=v4.1 ATGGCGGATAGTTACTGGAGATACGCCGGCGACTCACGGCAGCCGCAACCGCAGTCTATGCCTTCTCTCACTGGAAAACGCCCTCGCTCTGATTACGATG TACCCAGTGGCCGTGACCTATCCAGTTATTATTCCCGTGATGACGATAGAGGAGCTCTTCGTGTAATTAGAGATTCGGACTCCATTGGAGCATCCTATGA CCGTTACTTGCATAGTGGGACAATTTCATCTTACGGTGGGGGACAGTCTGCTAGAGCCATAAGTGGGGTGCCTGTTCGTCCTGTTGATGATCTGCGCATG GTAAGTATGGGGTCCATGGACCCAGGGTCTAGTGTAAAAGACAGGTCAATGCGAACAGGAAGTGGAAGATCTGAGGTTTCCCTTCCTCCTGATGCTAGCA GCACACTTTTTGTGGAGGGCTTGCCTTCTGACTGTACACGTCGGGAAGTTTCCCATATCTTTCGCCCTTTTGTTGGCTACAAAGAAGTGAGACTTGTAAG CAAGGAATCAAGACATCCTGGGGGAGATCCGTTGGTACTCTGTTTTGTTGACTTTTTGAGTCCTGCACATGCTGCCACTTCCATGGATGCATTGCAAGGT TATAGATTTGATGAGCATGACCGTGATTCGGTCGATTTAAGGTTGCAATTTGCTCGCTATCCTGGTGCAAGGTCAGGTGGCGGGCATCGTGGAAAGCGTT GA
AA sequence Show only first row Show all	>Potri.015G009000.2 pacid=42776260 polypeptide=Potri.015G009000.2.p locus=Potri.015G009000 ID=Potri.015G009000.2.v4.1 annot-version=v4.1 MADSYWRYAGDSRQPQPQSMPSLTGKRPRSDYDVPSGRDLSSYYSRDDDRGALRVIRDSDSIGASYDRYLHSGTISSYGGGQSARAISGVPVRPVDDLRM VSMGSMDPGSSVKDRSMRTGSGRSEVSLPPDASSTLFVEGLPSDCTRREVSHIFRPFVGYKEVRLVSKESRHPGGDPLVLCFVDFLSPAHAATSMDALQG YRFDEHDRDSVDLRLQFARYPGARSGGGHRGKR

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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
AT1G76940			RNA-binding (RRM/RBD/RNP motif...		Potri.015G009000 [exp]	0	1
AT4G17830			Peptidase M20/M25/M40 family p...		Potri.001G143200 [exp]	1.41	0.8581
AT1G53530			Peptidase S24/S26A/S26B/S26C f...		Potri.007G071400 [exp]	3.00	0.8634
AT3G15351			unknown protein		Potri.002G142000 [exp]	7.93	0.8470
AT2G30942			Protein of unknown function (D...		Potri.002G263100 [exp]	8.12	0.8197
AT1G29800			RING/FYVE/PHD-type zinc finger...		Potri.011G106700 [exp]	9.16	0.8431
AT3G13550		EMB144, COP10, ...	FUSCA 9, EMBRYO DEFECTIVE 144,...		Potri.001G089300 [exp]	12.00	0.8238
AT5G51880			2-oxoglutarate (2OG) and Fe(II...		Potri.015G135300 [exp]	13.49	0.8277
AT5G10030	bZIP	OBF4, TGA4	OCS ELEMENT BINDING FACTOR 4, ...		Potri.007G079900 [exp]	16.73	0.8410	STGA1.2
AT5G61030		GR-RBP3	glycine-rich RNA-binding prote...		Potri.012G061600 [exp]	17.43	0.8271
AT5G16790		AtTHO7	Tho complex subunit 7/Mft1p (....		Potri.013G080200 [exp]	20.14	0.8077

Compare expression of checked genes

Potri.015G009000 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.