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 AT1G60900 541 / 0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) AT4G36690 523 / 0 ATU2AF65A U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) AT1G60830 135 / 8e-38 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G09880 74 / 9e-14 Splicing factor, CC1-like (.1) AT2G33435 71 / 2e-12 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G71800 66 / 2e-11 CSTF64 cleavage stimulating factor 64 (.1) AT5G50250 60 / 1e-09 CP31B chloroplast RNA-binding protein 31B (.1) AT2G18510 58 / 8e-09 EMB2444 embryo defective 2444, RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G26420 56 / 2e-08 ATRZ-1A RZ-1A, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1) AT2G16940 57 / 3e-08 Splicing factor, CC1-like (.1.2.3)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.011G050400 [exp] 860 / 0 AT1G60900 532 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Potri.005G125500 [exp] 553 / 0 AT4G36690 626 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Potri.007G028500 [exp] 534 / 0 AT4G36690 601 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Potri.010G068400 [exp] 116 / 5e-27 AT2G33435 237 / 3e-65 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.007G009800 [exp] 82 / 3e-16 AT5G09880 519 / 9e-180 Splicing factor, CC1-like (.1) Potri.005G148100 [exp] 79 / 3e-15 AT5G09880 553 / 0.0 Splicing factor, CC1-like (.1) Potri.002G061200 [exp] 64 / 1e-10 AT1G71800 354 / 3e-117 cleavage stimulating factor 64 (.1) Potri.001G340800 [exp] 59 / 3e-09 AT4G24770 322 / 2e-110 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) Potri.007G028300 [exp] 58 / 8e-09 AT2G18510 453 / 4e-160 embryo defective 2444, RNA-binding (RRM/RBD/RNP motifs) family 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 Lus10024026 [exp] 519 / 4e-180 AT4G36690 678 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10041725 [exp] 518 / 9e-180 AT4G36690 672 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10035713 [exp] 526 / 2e-178 AT1G60900 640 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10037299 [exp] 508 / 7e-178 AT1G60900 629 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10011791 [exp] 137 / 7e-34 AT2G33435 215 / 6e-63 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10023746 [exp] 134 / 6e-33 AT2G33435 209 / 2e-60 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10002093 [exp] 80 / 1e-15 AT5G09880 600 / 0.0 Splicing factor, CC1-like (.1) Lus10000826 [exp] 75 / 5e-14 AT5G09880 589 / 0.0 Splicing factor, CC1-like (.1) Lus10014814 [exp] 66 / 4e-11 AT1G71800 350 / 2e-116 cleavage stimulating factor 64 (.1) Lus10017923 [exp] 66 / 5e-11 AT1G71800 306 / 4e-98 cleavage stimulating factor 64 (.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) CL0221 [poplar] [flax] RRM PF13893 [poplar] [flax] RRM_5 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
Representative CDS sequence Show only first row Show all	>Potri.004G040900.1 pacid=42796498 polypeptide=Potri.004G040900.1.p locus=Potri.004G040900 ID=Potri.004G040900.1.v4.1 annot-version=v4.1 ATGTCTTACAACGATACAGGAATCGATGAGAATGACGAAGATTACACTTCTCAGACTGATCGTGTCTCCCGTCACAAGACGTACAGTTCTCGGGAATCTG AACATGATAGGTCAAGGACTCGAGGCAGGGGAAAAGATCATGACCGCTATCGTGGCGGGTATAAAGATGGAAGTGTGAGGAATGATGGAAGAAGAGATAA ATTCGGTGATTTTGACCGTCATGAAAGGAGTAGCCGTGGTCGTAATTATCATAGGCACCGTGATTATGATGGTGATAGAGGAAGAAGGAATGGAAACAGA TCAAGTTCTTATTCCCAGGGTAGATTTCAGAATCGATCTAGGTCACGCTCTCGTTCGCGATCTCCTTCGAAAAGCAAGCGGAAAAGTGGTTTTGACATGG CTCCATCTGAGGTGGGCATGCTTCCTGGTGCTGCTGTGGCAGTTAATGATGCTGGACAACTGCCAAGTCTTCCTCAAACAATGCCAGGAGTGGTACAGAA CGCTTTACAATTTGGAACAACACAGTTTGGAGTTTTTCCATTAATGCCTGCCCAGGCCATGACCCAGCAGGCAACAAGGCATGCACGGCGTGTTTATGTT GGTGGTCTCCCTCCCCTGGCTAATGAACAGACAATTGCAGCATTCTTTAGCCATATTATGGCTTCCATTGGAGGAAATGCAGCTGGTCCAGGTGATGCAG TGGTGAATGTATACATAAATCACGAGAAGAAATTTGCGTTCGTGGAGATGAGAACTGTTGAAGAAGCAAGCAATGCAATGGCTTTAGATGGAATTATTTT TGAGGGGGTTGCTGTGAGAGTTCGGAGGCCTACTGACTACAATCCGTCATTGGCTGCGACTCTGGGTCCTAGTCAACCAAGTCCTCTCCTTAACTTAGCT GCTGTTGGTCTCGTACCAGGTACAATTAGCGGAGCGGAAGGACCTGATCGTGTCTTTGTTGGTGGATTGCCATATTACTTTACTGAGATACAGATTAGAG AGTTGCTAGAATCTTTTGGACCTCTCCGTGGTTTTGACCTTGTGAAGGACAGAGACACTGGGAACTCAAAAGGATATGGTTTCTGTGTCTATCAGGATCC TGCGGTGACTGATATTGCATGTGCTGCTCTAAATGGCTTGAAAATGGGAGATAAAACTCTAACTGTCCGTCGTGCTACTGAAAGTGGTGGGCAGTCCAAG TCAGAACAGGAAAATATATTGGCTCAAGCTCAACAGCATATAGCTATCCAGAAAATGGCCTTGCAAGCTGGTGTTATGAATCTTCCTGGAGTAGGGATAC CGTTGGCAGAATCTGCATACACTCCATCTAAAGTTTTATGCTTGACTGAGGCTATTACCATGGAAGTACTAGCAGATGATGAAGAGTATGAAGAAATATT AGAAGATATGCGGGAAGAATGTTGTAAATTTGGAACCTTGATCAATGTTGTTATTCCTCGCCCAAGTCAGAATGAAGAGAAAATGCCTGGCGCTGGAAAG GTGTTCTTGGAGTATTCTGATACCATTAGTTGTGCAAACGCAAGAAATGCACTAAATGGGAGGAAATTTGGAGGAAATACTGTGAATGCGTTTTATTATC CAGAAGAGAAGTATTCTAATGGAGATTATGGTGCATAA
AA sequence Show only first row Show all	>Potri.004G040900.1 pacid=42796498 polypeptide=Potri.004G040900.1.p locus=Potri.004G040900 ID=Potri.004G040900.1.v4.1 annot-version=v4.1 MSYNDTGIDENDEDYTSQTDRVSRHKTYSSRESEHDRSRTRGRGKDHDRYRGGYKDGSVRNDGRRDKFGDFDRHERSSRGRNYHRHRDYDGDRGRRNGNR SSSYSQGRFQNRSRSRSRSRSPSKSKRKSGFDMAPSEVGMLPGAAVAVNDAGQLPSLPQTMPGVVQNALQFGTTQFGVFPLMPAQAMTQQATRHARRVYV GGLPPLANEQTIAAFFSHIMASIGGNAAGPGDAVVNVYINHEKKFAFVEMRTVEEASNAMALDGIIFEGVAVRVRRPTDYNPSLAATLGPSQPSPLLNLA AVGLVPGTISGAEGPDRVFVGGLPYYFTEIQIRELLESFGPLRGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAALNGLKMGDKTLTVRRATESGGQSK SEQENILAQAQQHIAIQKMALQAGVMNLPGVGIPLAESAYTPSKVLCLTEAITMEVLADDEEYEEILEDMREECCKFGTLINVVIPRPSQNEEKMPGAGK VFLEYSDTISCANARNALNGRKFGGNTVNAFYYPEEKYSNGDYGA

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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
AT1G60900			U2 snRNP auxilliary factor, la...		Potri.004G040900 [exp]	0	1
AT1G14870		AtPCR2, PCR2	PLANT CADMIUM RESISTANCE 2 (.1...		Potri.008G132900 [exp]	4.35	0.6488
AT3G26420		ATRZ-1A	RZ-1A, RNA-binding (RRM/RBD/RN...		Potri.001G207100 [exp]	12.04	0.6041
AT3G42170			BED zinc finger ;hAT family di...		Potri.011G104000 [exp]	14.49	0.5817
AT5G03540		ATEXO70A1	exocyst subunit exo70 family p...		Potri.008G017800 [exp]	16.52	0.5510
AT1G12680		PEPKR2	phosphoenolpyruvate carboxylas...		Potri.007G112400 [exp]	19.23	0.6328
AT5G15270			RNA-binding KH domain-containi...		Potri.017G085500 [exp]	25.23	0.5714
AT3G54640		TRP3, TSA1	TRYPTOPHAN-REQUIRING 3, trypto...		Potri.002G045700 [exp]	28.14	0.5612	TSA1.2
AT5G42970		FUS4, EMB134, C...	FUSCA 8, FUSCA 4, EMBRYO DEFEC...		Potri.002G263200 [exp]	38.65	0.5950
AT1G48410		AGO1	ARGONAUTE 1, Stabilizer of iro...		Potri.012G037100 [exp]	48.85	0.5809
AT1G06060			LisH and RanBPM domains contai...		Potri.002G029700 [exp]	50.83	0.5070

Compare expression of checked genes

Potri.004G040900 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.