Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser]
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G60230 231 / 3e-72 ATSEN2, SEN2 splicing endonuclease 2 (.1.2) AT3G45590 226 / 1e-70 ATSEN1 splicing endonuclease 1 (.1.2) AT1G12700 207 / 2e-58 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G12775 195 / 1e-54 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 192 / 9e-54 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12300 191 / 2e-53 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62930 188 / 5e-52 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 187 / 1e-51 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 185 / 5e-51 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G62910 184 / 8e-51 Pentatricopeptide repeat (PPR) superfamily 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 Lus10036865 [exp] 515 / 8e-180 AT1G12700 273 / 1e-83 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10036866 [exp] 436 / 6e-152 AT5G60230 248 / 2e-82 splicing endonuclease 2 (.1.2) Lus10003427 [exp] 367 / 3e-123 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 357 / 2e-116 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 346 / 4e-112 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003447 [exp] 330 / 4e-106 AT1G12700 202 / 1e-56 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 327 / 1e-104 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 300 / 3e-94 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10020134 [exp] 274 / 2e-87 AT1G12700 254 / 3e-78 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1)
Poplar homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.009G131500 [exp] 269 / 3e-87 AT5G60230 290 / 2e-99 splicing endonuclease 2 (.1.2) Potri.005G038400 [exp] 273 / 5e-84 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 268 / 8e-82 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 268 / 4e-81 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G149800 [exp] 265 / 8e-81 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.017G032100 [exp] 262 / 2e-80 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 259 / 7e-79 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.019G021200 [exp] 256 / 6e-78 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.018G038300 [exp] 256 / 7e-78 AT1G12700 490 / 8e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G045000 [exp] 257 / 9e-78 AT1G12700 502 / 4e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [flax] [poplar] TPR PF01535 [flax] [poplar] PPR PPR repeat CL0476 [flax] [poplar] tRNA-IECD_N PF02778 [flax] [poplar] tRNA_int_endo_N tRNA intron endonuclease, N-terminal domain CL0236 [flax] [poplar] PDDEXK PF01974 [flax] [poplar] tRNA_int_endo tRNA intron endonuclease, catalytic C-terminal domain
Representative CDS sequence Show only first row Show all	>Lus10006218 pacid=23139698 polypeptide=Lus10006218 locus=Lus10006218.g ID=Lus10006218.BGIv1.0 annot-version=v1.0 ATGTCGGCGAGATGGAAAGGCAAAGGAGCCAAGGCGAAAGCTCTGGCAAATCCCATGTCTGCAACGGTCTCAAAGCTTCAATCTTGTCTTCTTCAATCAG ACGCTCACGGGTCACTCATAGGAATCACCGTGCTCCTACCAGTTGAACTATGCCAGGCTGAGCTTCTCACCGGGACTTGCTTTGGCCGACCCATCACTAC AGCCGACAAAGACAAACAACTATTTCAGCTGTCTCTGGAGGAAGCATTCTATCTCTGCCACTCTCTGAAATGCCTCAAAATCACCAACGGCGGCCATTGT CCGTTAACTGTCGAGGAGCTATGGCAGTACATGAAGTCCAAGGTACCGAATTTCCCTGTTTTTTACAAAGCTTATTCCCATCTCCGATCCAAGAACTGGG TGGTCTGGCCCGGATCGCCGTACGGCGTTGATTACGTTGCTTATCGTCACCACCCTTCTCTGGTGCATTCCGAATACGCGGTGATCGTTTTGTCGGAAGG GGAAGTCAACGGGAGGCTGACTGTCTGGTCTGATCTTTACTGCACGATTAGACTGAGTGGAAGTGTGGCCAAGACGCTGTTGGTAATTGACGTTGATAAA AGCGGCCATGGTGATCTTTCCCCTGCTGCTTTGGATGGGTACTCTGTTGACGAGCGGACGATCAAAAGATGGAGTGCTGAACGCAACAGGGAAGAGGATC AACAAATGGCTGCTGCTGCTGCTGTCGCTGATGGTGCTAAGTCAACTGCAATGGAGGAACCAGCGGTTTGGAGATCAAGTAGTGGCCATGCATTGCATTT CCTTGCTTCATCCATGGCGAAGAGAGTCACCTCCGGCTCTCAATTTCTGCTACCAAGGAAAGCGAGTATTGCTAAGTTAAGTTCCAATCAAACCACAGTT GAAGGCGCTTTGGATTCTTTCAATCGTATGATCTGCATGAACCCCAGGCCTGTTGTTAACGAATTCAGTTGGTTGTTTTCATCTCTCGTGAAAATGAATG CTTATGAAACTGCAGTCTCTGTATCTAGGCAAATACTATCTGCTGGGTTGCTCCATGATTTTTTCGGATTCAATATATTAGTCTGCTGCTTCTGCAAACT GGATCGTGTTGGTTTCGCATTCTCGGTGATGGGAAAAGCGTTTAAATTCGGTTTCCAACCTGACATTTGGACTTTCAACACCTTGATTGATGGGTTGTGT AAAGGCGGGAGAGTTGCTCATGCTGTGAAGTTTTTGGAAAAGATTGTGGCTTTAGGTTACAAACTGGATGTTATCAGTTACAATTCTGTTATTGACGGCC TCTGTAAGATGGGTGAAACCAGTGTCAGTCTTAGATTGCTCGAGAAGATGGACACTGCGGGATGTTCTCCAGACGTGGTTACTTACAGTGCAATCATAGA TAGGCTTTGTAAGGATGGGTTAGTGTCTGAAGCGTTTGATGTGTTTAAGAAGATGAAGGATAGAAAGTGTCCGCCTGACGTTGTTTGCTACAGTAGTTTG ATTCATGGTTTATGTGTTTCAAGTCGAAGGAAAGAAGCAATCGTACAGTTGAGTGAAATGTCGGAAATGGATCTCGTTCCTAATTCAGTCACCTATTCTA TCTTGGTTGATTCTTTTTGCAAAGAGGGAATGGTTCTCGAGGCCAAAGCTATAGTCAAAACGATTATATAA
AA sequence Show only first row Show all	>Lus10006218 pacid=23139698 polypeptide=Lus10006218 locus=Lus10006218.g ID=Lus10006218.BGIv1.0 annot-version=v1.0 MSARWKGKGAKAKALANPMSATVSKLQSCLLQSDAHGSLIGITVLLPVELCQAELLTGTCFGRPITTADKDKQLFQLSLEEAFYLCHSLKCLKITNGGHC PLTVEELWQYMKSKVPNFPVFYKAYSHLRSKNWVVWPGSPYGVDYVAYRHHPSLVHSEYAVIVLSEGEVNGRLTVWSDLYCTIRLSGSVAKTLLVIDVDK SGHGDLSPAALDGYSVDERTIKRWSAERNREEDQQMAAAAAVADGAKSTAMEEPAVWRSSSGHALHFLASSMAKRVTSGSQFLLPRKASIAKLSSNQTTV EGALDSFNRMICMNPRPVVNEFSWLFSSLVKMNAYETAVSVSRQILSAGLLHDFFGFNILVCCFCKLDRVGFAFSVMGKAFKFGFQPDIWTFNTLIDGLC KGGRVAHAVKFLEKIVALGYKLDVISYNSVIDGLCKMGETSVSLRLLEKMDTAGCSPDVVTYSAIIDRLCKDGLVSEAFDVFKKMKDRKCPPDVVCYSSL IHGLCVSSRRKEAIVQLSEMSEMDLVPNSVTYSILVDSFCKEGMVLEAKAIVKTII

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DESeq2's median of ratios [FLAX]

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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	HYP	R_s2_CTR	R_s2_Fox	R_s4_CTR	R_s4_Fox	R_r1_CTR	R_r1_Fox	R_r3_CTR	R_r3_Fox	R_r1s2_CTR	R_r1s2_Fox	R_r3s2_CTR	R_r3s2_Fox	R_s6_CTR	R_s6_Al4	R_s6_Al12	R_s6_Al24	R_s8_CTR	R_s8_Al4	R_s8_Al12	R_s8_Al24	R_r5_CTR	R_r5_Al4	R_r5_Al12	R_r5_Al24	R_r7_CTR	R_r7_Al4	R_r7_Al12	R_r7_Al24	LEAF_N	LEAF_P	LEAF_NPK	SAM	AR_Bet	AR_rdf	cPAR	TOP_Bet	TOP_rdf	iFIBa	iFIBb	MID_Bet	MID_rdf	tFIBa	tFIB_Gr	tFIB_Li	tFIB_Bi	tFIBb	tFIBb_PUL8	tFIBb_PUL24	tFIBb_PUL96	tFIBb_OPP8	tFIBb_OPP24	tFIBb_OPP96	sXYLa	sXYLb	sXYLb_PUL8	sXYLb_PUL24	sXYLb_PUL96	sXYLb_OPP8	sXYLb_OPP24	sXYLb_OPP96
AT5G60230		ATSEN2, SEN2	splicing endonuclease 2 (.1.2)		Lus10006218 [exp]	0	1
AT4G32730	MYB	ATMYB3R-1, PC-M...	C-MYB-LIKE TRANSCRIPTION FACTO...		Lus10038623 [exp]	3.5	0.8361
AT5G49880			mitotic checkpoint family prot...		Lus10007439 [exp]	8.9	0.8327
AT5G36930			Disease resistance protein (TI...		Lus10023487 [exp]	12.4	0.8245
AT2G24640		UBP19	ubiquitin-specific protease 19...		Lus10020116 [exp]	15.5	0.8200
AT4G29490			Metallopeptidase M24 family pr...		Lus10032694 [exp]	15.7	0.8141
AT4G33090		ATAPM1, APM1	aminopeptidase M1 (.1)		Lus10026448 [exp]	17.0	0.8024
AT1G18700			DNAJ heat shock N-terminal dom...		Lus10021658 [exp]	19.0	0.7781
AT1G06110		SKIP16	SKP1/ASK-interacting protein 1...		Lus10004805 [exp]	19.7	0.8224
AT5G12100			pentatricopeptide (PPR) repeat...		Lus10008650 [exp]	23.7	0.7896
AT2G47980		SCC3, ATSCC3	sister-chromatid cohesion prot...		Lus10008306 [exp]	29.6	0.8174

Compare expression of checked genes

Lus10006218 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.