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 AT2G21440 750 / 0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G64200 64 / 8e-11 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT5G18810 63 / 8e-11 SCL28, At-SCL28 SC35-like splicing factor 28 (.1) AT3G11400 59 / 6e-09 ATEIF3G1, EIF3G1 eukaryotic translation initiation factor 3G1 (.1.2) AT2G37220 58 / 7e-09 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT4G24770 56 / 6e-08 CP31, ATRBP33, ATRBP31, RBP31 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) AT3G23830 53 / 6e-08 AtGRP4, GR-RBP4, GRP4 glycine-rich RNA-binding protein 4 (.1.2) AT2G35410 56 / 7e-08 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G55460 55 / 7e-08 SCL30, At-SCL30 SC35-like splicing factor 30 (.1) AT5G50250 55 / 7e-08 CP31B chloroplast RNA-binding protein 31B (.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.008G196700 [exp] 70 / 7e-13 AT5G18810 168 / 8e-52 SC35-like splicing factor 28 (.1) Potri.010G203200 [exp] 66 / 2e-11 AT3G55460 144 / 1e-41 SC35-like splicing factor 30 (.1) Potri.006G202000 [exp] 64 / 9e-11 AT3G52380 270 / 2e-89 PIGMENT DEFECTIVE 322, chloroplast RNA-binding protein 33 (.1) Potri.016G090700 [exp] 63 / 1e-10 AT2G37220 302 / 4e-103 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.008G056600 [exp] 63 / 2e-10 AT3G55460 134 / 6e-38 SC35-like splicing factor 30 (.1) Potri.005G165400 [exp] 60 / 2e-09 AT5G64200 202 / 2e-63 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.010G199000 [exp] 60 / 2e-09 AT3G11400 422 / 4e-150 eukaryotic translation initiation factor 3G1 (.1.2) Potri.008G060000 [exp] 59 / 3e-09 AT3G11400 422 / 5e-150 eukaryotic translation initiation factor 3G1 (.1.2) Potri.012G090200 [exp] 59 / 4e-09 AT4G24770 310 / 7e-105 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.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 Lus10042589 [exp] 816 / 0 AT2G21440 825 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10022044 [exp] 807 / 0 AT2G21440 832 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10002699 [exp] 64 / 1e-10 AT3G55460 138 / 3e-39 SC35-like splicing factor 30 (.1) Lus10028823 [exp] 62 / 4e-10 AT3G11400 459 / 9e-165 eukaryotic translation initiation factor 3G1 (.1.2) Lus10000953 [exp] 64 / 5e-10 AT2G39670 588 / 0.0 Radical SAM superfamily protein (.1.2) Lus10013801 [exp] 63 / 5e-10 AT3G53460 258 / 2e-82 chloroplast RNA-binding protein 29 (.1.2.3.4) Lus10023802 [exp] 62 / 7e-10 AT5G64200 217 / 1e-68 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10023191 [exp] 61 / 9e-10 AT3G53460 263 / 2e-87 chloroplast RNA-binding protein 29 (.1.2.3.4) Lus10026514 [exp] 61 / 1e-09 AT2G37220 284 / 4e-96 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10002222 [exp] 61 / 1e-09 AT3G53460 263 / 1e-87 chloroplast RNA-binding protein 29 (.1.2.3.4)
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.009G120900.3 pacid=42771318 polypeptide=Potri.009G120900.3.p locus=Potri.009G120900 ID=Potri.009G120900.3.v4.1 annot-version=v4.1 ATGCACCGTGCGTCATTAGAACAGCGTCGGGCAAAGGCAGCTCAAGGTCAAGGTCAAGTTCAAGATGATGCAACGAAGACCATCGATGAGAAGGGCAGTG TTGCCTCTAAGCCAGAAAAGCATGTTCTGAATGTGCTGGAATCAGGGAAACCTCGAGAGCCGAGAAAACCAGCAAAACTTGTCACTGATCTAACTGATAA AGAGAATTGTTCTGAAAAGCAGAGGGTTGCTAGAACTGTGATATTTGGTGGCCTTCTTAATGATGCTATGGCAGAAGATGTTCATCAGCGAGCCAAAGAG ACTGGCACTGTGTGTTCTGTAACTTATCCCCTTCCCAAGGAAGAGCTGAAAAAACATGGCCTTGAACAAGATGGATGCAGATCAGGTGCTTCAGCTGTAC TTTTCACAAGTGTCAAAGAAGCACGTTCTTCTGTGGCAATGCTACACCAAAAAGAAATTAAAGGTGGAATTGTTTGGGCGCGGCAGCTAGGGGGGGAGGG TTGCAAGACACAGAAATGGAAACTTATTATCAGAAATCTTCCTTTCAAGGCCAAACCAAATGAGATAAAAGGTGTGTTTGAATCAGCGGGATGTGTTTGG GATGTGTTTGTTCCACATAATTCTGAAACAGGGTTATCCAAGGGTTTTGCTTTTGTCAAGTTCACATGCAAGCAGGATGCAGAAAATGCCATTCAGAAGT TCAATGGGCAAAAGTTTGGCAAAAGACCCATAGCTGTTGACTGGGCTGTTCCAAAAAAGATTTATAGCAGTGGTGCTAATGTGTCTGCTGCTTCAGAAGA TGGACATCAGAATGAAAAAGACAGTAGCTGTGAGGATTCAGATTATGACGACGAAGATGACAATGATACAGATGTTATTGGAAAAAAACAACAGCATGAT GGGGTTGTTGTTACTTCACCTGACTCGGATTTATCTGAAAAAGAAGACATGCCAACTGAAGTTGATTTTGAACAGGAAGCAGACATTGCGAGAAAAGTTC TCAGGAATTTGATCGCATCATCTTCTGATGTGTTGCCCAAGGGTATTGAGGAGTTGGAAACTGTTGATGTGCCAAGTAAGTTGCCTGGCGAGTCTGAAAA TTTATCAGGGAGTCCTCTATCCAGTGGAAAGAGCAAACCATCTAATACTAAGCACATAGATGGAGAAGATGATTTGCAGAGAACTGTTTTTATTAGCAAT CTTCCTTTTGATGTTGAAAGTGGAGAAGTGAAACAACGGTTCTCTGCATTCGGGGAAGTGCTATCCTTTGTTCCTGTCCTTCATCAAGTCACCAAGCGAC CTAGAGGGACTGGTTTTCTCAAGTTTAAAACAGCAGATGGGGCTACTGCTGCTGTTTCAGCTGCTAATGTTGCATCTGGTCTGGGAATTTTTTTGAAAGG TAGGCAACTGACAGTCTTGAAGGCTTTGGATAAGAAATCAGCGCATGATAAGGAAAAAGAGAAGACCAAAATTGAGGACCGGGACCATCGCAATCTTTAC TTGGCAAAGGAAGGCCTTATTCTTGAGGGGACTCCAGCTGCTGAAGGTGTCTCAATTAGTGATATGGCTAAGAGGAACAGGTTGCAGGAAGAGAAGATGA CCAAGCTGAGATCTCCAAATTTTCATGTCTCAAGGACCAGGCTTGTTGTATACAATTTACCAAAGTCAATGACTGAAAAACAACTGAAGAAGCTTTTCAT TGATGCTGTTACCTCACGTGCCACAAAGCAAAAGCCTGTGATTCGACAGATGAAGTTTTTAAAGAATGTAAAGAAGGGAAAAGTTGTCACAAAGGACCAT TCACGTGGGGTTGCTTTTGTTGAGTTTACGGAGCATCAGCATGCACTGGTGGCCCTGAGGGTTCTTAATAACAATCCTGAAACTTTTGGTCCTGAACATC GCCCAATAGTCTCGTTTGCTCTTGATAATGTTCAAACTTTGAAACTACGAAAAGCTAAGCTTCAAGTGCAGCAGCAGGAAACCCATAAAGATTTCCAAGA TACGCAGGAAAATGACGAGTCACAGACTCCAAACGCCATTCCAAGCCAGAAGGAGATGTCCAGAAAAAGGAAATCCAGAGTTGAGAATAGAGCAGTGAAG GACCCAGAATCAAATAGAATGGATGAAGTGAAGAATAAGGATTCCTATAGGACGTCCTTGAAAGAACAGACTGCTAAAAAGAAGAAGAGCAATCCAGGAG CTGAAGACATACAAACTTCTGCAAAAGACAAGAGAGAAAGCAGGGAACAGAAGGCTAAAGGCTCCCAACACAAGCAAAAGGATGAAGGCAGAAAGTCCGA TGGTGGAAATTCAGTTAATAGCGAAAAAATAGTTAAACCTTTCAAGGAAGCAGATTTGTGGCTAACAAAGAGGAAACGTCCTAACCAAACAGAAGAAAAC AAGGGCGGTAAGAGTTCAGAGAAAAGAAAAAGGCCCAAGAAGAATAAAGACCCCGTAGGACAGGACGTGGCTGATAAACTTGACATGCTGATCGAACAAT ACAAATCCAAATTCTCCAAGCAGACTGCCGACAAACCTGAAGGTGAAAAACAGGCTAATAAACAACTTAAAAGATGGTTTCAATCATAA
AA sequence Show only first row Show all	>Potri.009G120900.3 pacid=42771318 polypeptide=Potri.009G120900.3.p locus=Potri.009G120900 ID=Potri.009G120900.3.v4.1 annot-version=v4.1 MHRASLEQRRAKAAQGQGQVQDDATKTIDEKGSVASKPEKHVLNVLESGKPREPRKPAKLVTDLTDKENCSEKQRVARTVIFGGLLNDAMAEDVHQRAKE TGTVCSVTYPLPKEELKKHGLEQDGCRSGASAVLFTSVKEARSSVAMLHQKEIKGGIVWARQLGGEGCKTQKWKLIIRNLPFKAKPNEIKGVFESAGCVW DVFVPHNSETGLSKGFAFVKFTCKQDAENAIQKFNGQKFGKRPIAVDWAVPKKIYSSGANVSAASEDGHQNEKDSSCEDSDYDDEDDNDTDVIGKKQQHD GVVVTSPDSDLSEKEDMPTEVDFEQEADIARKVLRNLIASSSDVLPKGIEELETVDVPSKLPGESENLSGSPLSSGKSKPSNTKHIDGEDDLQRTVFISN LPFDVESGEVKQRFSAFGEVLSFVPVLHQVTKRPRGTGFLKFKTADGATAAVSAANVASGLGIFLKGRQLTVLKALDKKSAHDKEKEKTKIEDRDHRNLY LAKEGLILEGTPAAEGVSISDMAKRNRLQEEKMTKLRSPNFHVSRTRLVVYNLPKSMTEKQLKKLFIDAVTSRATKQKPVIRQMKFLKNVKKGKVVTKDH SRGVAFVEFTEHQHALVALRVLNNNPETFGPEHRPIVSFALDNVQTLKLRKAKLQVQQQETHKDFQDTQENDESQTPNAIPSQKEMSRKRKSRVENRAVK DPESNRMDEVKNKDSYRTSLKEQTAKKKKSNPGAEDIQTSAKDKRESREQKAKGSQHKQKDEGRKSDGGNSVNSEKIVKPFKEADLWLTKRKRPNQTEEN KGGKSSEKRKRPKKNKDPVGQDVADKLDMLIEQYKSKFSKQTADKPEGEKQANKQLKRWFQS

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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
AT2G21440			RNA-binding (RRM/RBD/RNP motif...		Potri.009G120900 [exp]	0	1
AT4G16630			DEA(D/H)-box RNA helicase fami...		Potri.005G241300 [exp]	2.64	0.8785
AT3G11964			RNA binding;RNA binding (.1)		Potri.016G062600 [exp]	3.74	0.8757
AT1G72320		APUM23	pumilio 23 (.1.2.3)		Potri.003G073000 [exp]	4.89	0.8648
AT1G06720			P-loop containing nucleoside t...		Potri.017G017700 [exp]	7.48	0.8406
AT4G31520			SDA1 family protein (.1)		Potri.008G182900 [exp]	10.48	0.8516
AT3G57660		NRPA1	nuclear RNA polymerase A1 (.1)		Potri.006G055300 [exp]	10.77	0.8542
AT4G11420		ATTIF3A1, ATEIF...	eukaryotic translation initiat...		Potri.005G021400 [exp]	11.83	0.7762
AT1G48920		ATNUC-L1, PARL1	PARALLEL 1, nucleolin like 1 (...		Potri.005G093100 [exp]	13.74	0.8008
AT1G74240			Mitochondrial substrate carrie...		Potri.012G066000 [exp]	13.85	0.7793
AT4G02400			U3 ribonucleoprotein (Utp) fam...		Potri.002G203700 [exp]	14.83	0.8015

Compare expression of checked genes

Potri.009G120900 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.