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 AT4G36690 627 / 0 ATU2AF65A U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) AT1G60900 624 / 0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) AT1G60830 157 / 6e-46 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT2G33435 72 / 8e-13 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G09880 70 / 2e-12 Splicing factor, CC1-like (.1) AT1G71800 64 / 9e-11 CSTF64 cleavage stimulating factor 64 (.1) AT5G50250 62 / 4e-10 CP31B chloroplast RNA-binding protein 31B (.1) AT4G24770 60 / 1e-09 CP31, ATRBP33, ATRBP31, RBP31 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) AT5G51300 58 / 2e-08 splicing factor-related (.1.2.3) AT3G13224 57 / 2e-08 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.007G028500 [exp] 706 / 0 AT4G36690 601 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Potri.004G040900 [exp] 537 / 0 AT1G60900 541 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Potri.011G050400 [exp] 531 / 0 AT1G60900 532 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Potri.010G068400 [exp] 103 / 1e-22 AT2G33435 237 / 3e-65 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.007G028300 [exp] 66 / 2e-11 AT2G18510 453 / 4e-160 embryo defective 2444, RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.001G340800 [exp] 64 / 4e-11 AT4G24770 322 / 2e-110 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) Potri.007G009800 [exp] 65 / 8e-11 AT5G09880 519 / 9e-180 Splicing factor, CC1-like (.1) Potri.002G061200 [exp] 64 / 1e-10 AT1G71800 354 / 3e-117 cleavage stimulating factor 64 (.1) Potri.005G148100 [exp] 63 / 3e-10 AT5G09880 553 / 0.0 Splicing factor, CC1-like (.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 Lus10035713 [exp] 639 / 0 AT1G60900 640 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10037299 [exp] 632 / 0 AT1G60900 629 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10024026 [exp] 629 / 0 AT4G36690 678 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10041725 [exp] 628 / 0 AT4G36690 672 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10011791 [exp] 128 / 8e-31 AT2G33435 215 / 6e-63 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10023746 [exp] 120 / 4e-28 AT2G33435 209 / 2e-60 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10011201 [exp] 62 / 1e-11 AT1G60830 71 / 3e-17 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10017923 [exp] 67 / 3e-11 AT1G71800 306 / 4e-98 cleavage stimulating factor 64 (.1) Lus10014814 [exp] 65 / 7e-11 AT1G71800 350 / 2e-116 cleavage stimulating factor 64 (.1) Lus10002093 [exp] 65 / 1e-10 AT5G09880 600 / 0.0 Splicing factor, CC1-like (.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.005G125500.10 pacid=42803127 polypeptide=Potri.005G125500.10.p locus=Potri.005G125500 ID=Potri.005G125500.10.v4.1 annot-version=v4.1 ATGACTGATTACGAAGCTGAGAGATACGAAGGTAACGGCGGTGCTGTTTTCGAAAACAACAGCTACGGTGCCGATTCCTCTCCTCCGCCACGCGGCGGCG ATGATCACAGCGATTCCAAGTCTCAGCATGGGTCTCGTGACTACGAGAGGGAGTCTTCAAAAGGCAGGGAGAAAGAGAGAAGCAGAGATAGTGACAGGGA CAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGATAGGGAGAAAAGCAGGGGCAGGGATAGG GAAAGGGACCGAGACAAGGATAGTGATCATCATCGTGATCGACATAGAGATCGCAGTGAAAGAAGGGATCGGGGCCGAGATAGGGATGATGATGATTACT ACCGAAGCCGAGATTATGACAGGCGGAGAGATTATGATAGAGACAGTGAAGACAGACATAGACGCTTGTCACGATCTCGTTCAAAAGGTAGATCTGAGCA CAGATCAAGGTCACGCTCACGATCACGCTCTAAGAGCAAAAGGATGAGCGGTTTTGATATGGCTCCTCCTTCTTCTGCAATATTGCCTAATGCTGCCGCT GCTGCTGCCGCTTCAGGCCAGATTGCTGGGACCACTCCTCCCATTCCTGGAATGTTTCCCAACATGTTTCCATTAGGGACTAGTCAGCAGTTTGGTGCTC TCCCTGTTATGCCAGTTCAGGCTATGACTCAACAGGCTACTAGGCATGCTCGGCGGGTCTATGTTGGAGGGCTTCCACCTACAGCCAATGAACAGTCTGT GGCTACCTTTTTTAGCCAGGTTATGGCTGCAATTGGAGGGAACACTGCAGGCCCAGGGGATGCTGTTGTTAATGTTTATATAAACCATGAAAAGAAGTTT GCATTTGTGGAGATGAGATCTGTTGAGGAGGCCAGTAATGCAATGGCTTTGGATGGGATTATTTTTGAGGGAGCACCTGTTAAGGTGAGGAGACCTAGTG ACTATAATCCATCTCTGGCTGCAACACTTGGTCCAAGCCAACCCAATCCCAATCTTAATCTATCTGCAGTGGGCCTTGCTCCGGGTTCGGCTGGTGGACT CGAGGGTCCAGACCGCATTTTTGTGGGTGGACTTCCGTATTACTTCACAGAATCACAGATCAGGGAGTTGTTGGAGTCTTTTGGACCCCTCCGTGGTTTT GATCTTGTAAAAGACAGAGAAACTGGGAACTCAAAAGGCTATGCATTTTGTGTTTATCAAGATCTTTCAGTTACAGACATAGCTTGTGCTGCTCTGAATG GCATTAAAATGGGTGATAAAACTCTCACTGTTAGGCGTGCCAACCAGGGCACCAACCAACCAAAACCTGAGCAAGAGAATGTGCTATTGCATGCCCAGCA GCAGATTGCATTGCAGAGGCTTATGTTACAGCCACAGCAACAGCCTGTGCCCACAAAAGTTGTATGCCTAACTCAAGTAGTTACTGGAGATGAGCTGAAG GATGATGACGAGTATGAAGACATTTTGGAAGACATGAGAACAGAAGCCGGGAAATTTGGTCAACTGGTTAATGTTGTGATCCCGCGCCCAAGACCAAACG GTGAAAATGCACCAGGAGTTGGGAAGGTGTTCTTGGAGTATGCAGACACTGAAGGTTCTTCAAAAGCTCGAGCGGGGATGAACGGGAGGAAATTTGACGG AAATCAAGTTGTGGCTGTCTTTTATCCAGAGAACAAGTTCTCCCAGGGAGAATATGATGACTAA
AA sequence Show only first row Show all	>Potri.005G125500.10 pacid=42803127 polypeptide=Potri.005G125500.10.p locus=Potri.005G125500 ID=Potri.005G125500.10.v4.1 annot-version=v4.1 MTDYEAERYEGNGGAVFENNSYGADSSPPPRGGDDHSDSKSQHGSRDYERESSKGREKERSRDSDRDRDRDRDRDRDRDRDRDRDRDRDRDREKSRGRDR ERDRDKDSDHHRDRHRDRSERRDRGRDRDDDDYYRSRDYDRRRDYDRDSEDRHRRLSRSRSKGRSEHRSRSRSRSRSKSKRMSGFDMAPPSSAILPNAAA AAAASGQIAGTTPPIPGMFPNMFPLGTSQQFGALPVMPVQAMTQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKF AFVEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLSAVGLAPGSAGGLEGPDRIFVGGLPYYFTESQIRELLESFGPLRGF DLVKDRETGNSKGYAFCVYQDLSVTDIACAALNGIKMGDKTLTVRRANQGTNQPKPEQENVLLHAQQQIALQRLMLQPQQQPVPTKVVCLTQVVTGDELK DDDEYEDILEDMRTEAGKFGQLVNVVIPRPRPNGENAPGVGKVFLEYADTEGSSKARAGMNGRKFDGNQVVAVFYPENKFSQGEYDD

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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
AT4G36690		ATU2AF65A	U2 snRNP auxilliary factor, la...		Potri.005G125500 [exp]	0	1
AT4G36980			unknown protein		Potri.005G138200 [exp]	1.73	0.9085
AT5G51230	C2H2ZnF	AtEMF2, CYR1, V...	CYTOKININ RESISTANT 1, EMBRYON...		Potri.001G080200 [exp]	3.46	0.8569	VEF901,Pt-VRN2.5
AT4G36980			unknown protein		Potri.007G044100 [exp]	5.29	0.8744
AT2G47020			Peptide chain release factor 1...		Potri.014G114000 [exp]	8.71	0.8317
AT1G15200			protein-protein interaction re...		Potri.001G208200 [exp]	9.79	0.8799
AT1G45150			unknown protein		Potri.014G180700 [exp]	10.19	0.8627
AT3G28430			unknown protein		Potri.018G140800 [exp]	10.48	0.8598
AT4G25500		ATRSP40, AT-SRP...	ARABIDOPSIS THALIANA ARGININE/...		Potri.014G076600 [exp]	16.37	0.8088
					Potri.017G020864 [exp]	18.16	0.8723
AT3G26100			Regulator of chromosome conden...		Potri.012G018600 [exp]	18.86	0.7646

Compare expression of checked genes

Potri.005G125500 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.