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 AT1G55310 187 / 9e-59 ATSCL33, SR33, At-SCL33 SC35-like splicing factor 33 (.1.2.3) AT3G13570 182 / 2e-57 SCL30A, At-SCL30A SC35-like splicing factor 30A (.1) AT5G18810 118 / 9e-33 SCL28, At-SCL28 SC35-like splicing factor 28 (.1) AT3G55460 109 / 3e-29 SCL30, At-SCL30 SC35-like splicing factor 30 (.1) AT5G64200 72 / 6e-15 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT3G10400 62 / 2e-11 U11/U12-31K U11/U12-31K, RNA recognition motif and CCHC-type zinc finger domains containing protein (.1) AT2G21440 60 / 2e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G08000 56 / 9e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G46020 52 / 5e-09 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G54580 53 / 9e-09 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.016G062500 [exp] 239 / 2e-80 AT3G13570 167 / 9e-52 SC35-like splicing factor 30A (.1) Potri.001G006400 [exp] 187 / 1e-59 AT3G13570 170 / 3e-52 SC35-like splicing factor 30A (.1) Potri.003G218600 [exp] 187 / 2e-59 AT3G13570 177 / 7e-55 SC35-like splicing factor 30A (.1) Potri.008G056600 [exp] 134 / 2e-38 AT3G55460 134 / 6e-38 SC35-like splicing factor 30 (.1) Potri.010G203200 [exp] 125 / 5e-35 AT3G55460 144 / 1e-41 SC35-like splicing factor 30 (.1) Potri.008G196700 [exp] 121 / 5e-34 AT5G18810 168 / 8e-52 SC35-like splicing factor 28 (.1) Potri.010G026100 [exp] 119 / 3e-33 AT5G18810 172 / 2e-53 SC35-like splicing factor 28 (.1) Potri.003G023800 [exp] 72 / 3e-15 AT5G64200 207 / 4e-66 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.002G095800 [exp] 69 / 3e-14 AT5G64200 204 / 5e-65 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10029328 [exp] 146 / 7e-44 AT1G55310 160 / 2e-49 SC35-like splicing factor 33 (.1.2.3) Lus10012932 [exp] 121 / 4e-34 AT3G13570 174 / 1e-53 SC35-like splicing factor 30A (.1) Lus10016215 [exp] 113 / 2e-31 AT1G55310 119 / 6e-34 SC35-like splicing factor 33 (.1.2.3) Lus10002699 [exp] 114 / 9e-31 AT3G55460 138 / 3e-39 SC35-like splicing factor 30 (.1) Lus10000953 [exp] 115 / 2e-29 AT2G39670 588 / 0.0 Radical SAM superfamily protein (.1.2) Lus10017299 [exp] 77 / 1e-17 AT1G55310 120 / 9e-35 SC35-like splicing factor 33 (.1.2.3) Lus10013539 [exp] 74 / 1e-16 AT1G55310 119 / 5e-34 SC35-like splicing factor 33 (.1.2.3) Lus10003957 [exp] 71 / 1e-14 AT5G64200 217 / 9e-70 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10023802 [exp] 70 / 5e-14 AT5G64200 217 / 1e-68 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10015146 [exp] 58 / 9e-11 AT3G08000 145 / 5e-46 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.006G197000.1 pacid=42770131 polypeptide=Potri.006G197000.1.p locus=Potri.006G197000 ID=Potri.006G197000.1.v4.1 annot-version=v4.1 ATGAGGGGAAGAAGCTACGATTACAGTCCCTCACCCCCAAGGGGTTATGGGAGGAGACATAGGAATCCTAGCCCTAGGGGTCGGGATGGAGGTCGTGGTA GGGATCTTCCTACTAGTCTCTTGGTCCGCAATCTCCGTCATGATTGCAGGCCTGAAGATCTTCGTGGACTTTTTGGACGGTTTGGTCAGCTAAAGGACAT TTACTTGCCCCGAGACTATTATACTGGGGAGCCACGTGGCTTTGGATTTGTCCAATATTTAGAATCAGCTGATGCTGCAGATGCTAAGCACCATTTGGAT GGTGAAATTCTTCTTGGCCAGGAACTGACAGTTGTTTTTGCCGAGGAAAATAGGAAGAAGCCTGCAGAAATGAGGCAAAGAGATCGTGTGAGGGGTGGTC GGTACTATGACCAAAGGCGCTCTCCATCGCCGCTCTATGGACGGAGTTACTCTCATAGTCCTGTCTATTATTCTCCTTCCCCCAGGAGAAGACATTATTC AAGATCAATTTCTCCTAGAGATAGGAGCCCCTACTCAAGGTCCCCACATGGTTCAAGGAGCTACAGCAGGAGCCCAGTTAGGAGTTGGTCTCCTTATGGT TCAAGGAGCAGGAGCCGGAGCCTAGAGGACTCCAGGTGA
AA sequence Show only first row Show all	>Potri.006G197000.1 pacid=42770131 polypeptide=Potri.006G197000.1.p locus=Potri.006G197000 ID=Potri.006G197000.1.v4.1 annot-version=v4.1 MRGRSYDYSPSPPRGYGRRHRNPSPRGRDGGRGRDLPTSLLVRNLRHDCRPEDLRGLFGRFGQLKDIYLPRDYYTGEPRGFGFVQYLESADAADAKHHLD GEILLGQELTVVFAEENRKKPAEMRQRDRVRGGRYYDQRRSPSPLYGRSYSHSPVYYSPSPRRRHYSRSISPRDRSPYSRSPHGSRSYSRSPVRSWSPYG SRSRSRSLEDSR

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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
AT1G55310		ATSCL33, SR33, ...	SC35-like splicing factor 33 (...		Potri.006G197000 [exp]	0	1
AT2G23780			RING/U-box superfamily protein...		Potri.005G127900 [exp]	1.41	0.8750
AT1G07350		SR45a	serine/arginine rich-like prot...		Potri.001G248100 [exp]	1.41	0.9037
AT5G01350			unknown protein		Potri.016G118800 [exp]	1.73	0.8518
AT1G49400		EMB1129	embryo defective 1129, Nucleic...		Potri.018G150100 [exp]	3.74	0.7795
AT3G13570		SCL30A, At-SCL3...	SC35-like splicing factor 30A ...		Potri.016G062500 [exp]	5.47	0.8100
AT5G35520		MIS12, ATMIS12	MIS12 HOMOLOGUE, ARABIDOPSIS M...		Potri.015G055500 [exp]	6.08	0.7161
AT4G11660	HSF	AT-HSFB2B, HSFB...	HEAT SHOCK TRANSCRIPTION FACTO...		Potri.001G108100 [exp]	6.63	0.8125	Pt-HSF6.1
AT4G30820			cyclin-dependent kinase-activa...		Potri.018G103200 [exp]	7.87	0.7198
AT3G53340	CCAAT	NF-YB10	"nuclear factor Y, subunit B10...		Potri.016G085000 [exp]	8.00	0.7729
AT2G33735			Chaperone DnaJ-domain superfam...		Potri.002G103900 [exp]	10.24	0.7490

Compare expression of checked genes

Potri.006G197000 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.