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 AT3G22470 370 / 1e-120 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12700 362 / 3e-116 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G62680 356 / 3e-116 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62930 350 / 5e-113 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12620 349 / 1e-112 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G16640 344 / 3e-112 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 347 / 8e-112 RPF2 rna processing factor 2 (.1) AT1G63130 343 / 3e-110 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63150 342 / 6e-110 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 338 / 1e-108 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 Lus10024962 [exp] 916 / 0 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10008593 [exp] 724 / 0 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014244 [exp] 719 / 0 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014245 [exp] 713 / 0 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 661 / 0 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014247 [exp] 545 / 0 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10029737 [exp] 526 / 1e-180 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10042768 [exp] 520 / 5e-178 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10014242 [exp] 468 / 9e-162 AT1G62930 256 / 5e-78 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.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.019G021200 [exp] 479 / 1e-163 AT1G12700 491 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G149800 [exp] 475 / 2e-161 AT1G12700 482 / 6e-162 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G257300 [exp] 474 / 2e-161 AT1G62930 481 / 3e-163 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271400 [exp] 466 / 2e-158 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 466 / 3e-158 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 465 / 3e-158 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 462 / 3e-157 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.005G038400 [exp] 463 / 5e-157 AT1G12700 478 / 7e-161 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050400 [exp] 462 / 1e-156 AT1G12700 504 / 3e-171 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.018G038300 [exp] 461 / 1e-156 AT1G12700 490 / 8e-166 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
Representative CDS sequence Show only first row Show all	>Lus10022861 pacid=23159974 polypeptide=Lus10022861 locus=Lus10022861.g ID=Lus10022861.BGIv1.0 annot-version=v1.0 ATGGCGAAAACAATCTTCTACCATGGAAACGGCTCTCAATTTCAGTTTCGAAGGAAAACGGGTATGGCTAAGTTTCCATTTTCTTCATCTTCTTCTTCAG CTGCTTCAACAATGCCTCTTTCAGCTCATTTCATTTCCAAGCAGACTACTGCTCCTCGTGCCTCCGGTTCTCCTTCTTTCTCCACCGTCGAAGCCGCCTT GGATTCATTTGATCGTATGCTCTGCATGAAACCGATGCCTCATATTGCTGAATTCGGTCGGTTATTCACATCTCTTGTTAAATTGAACGCCTATGAAGCT GCTGTGTCGGTATCCAGGCAAATGGAATTGGTTGGACTGCAATCAAATTTTTTCAGATTCAGTATGGTAATTCGTTGCTTCTGCAAATTGGGTCGTATTG ATTTTGCATTCTCAGTATTAGGCAAAGTTTTTAAACTCGGTATTCCACCAAACATTTGGACGTTCAGCAGCTTGATTGATGGATTGTGCAAAGAAGGGGA AATTGCTCATGCGGTGAAGTTTTTAGAAAAGATTGTAGCTTTAGGATATCGGCCGAATGTCATCATTTACAGTTCAATCATCAATGGTCTTTGTAAACAT GGGTTCGTAACTAAAGCCTTGGATGTTTTTCTCAAGATGAAGGATCGAAAGTGTTCACCAGATGTTGTTAGTTACAGTTGTTTGATTCATGGTTTATGTG TTCTAAGTCGGAGGAAAGAAGCGATGATGTTGTTGAATGAAATGGGAGAAACGAATATCGTTCCCGATGCATTCACCTATAGCATTCTGATTGATTCTTT CTGCAAAGACGGAATGGTTCTAGAGGCCAAAGCCATAGTTAAGATAATGATTCAAAGTGGACAGCATCCAGATATCGTCACTTTCAGTTCATTGCTAGAT GGATATTGTTTGCGTAACGAAATAGATAAAGCTCGTAAATTATTTGATTTTTTGGTCAGGAGAGGATGCAAGCCTAATGTTTGTACTTATAGTATTATGA TTAACGGATATTGTAAGAGTCAAAGGTTGGTTGAAGGCAAACAGTTGTTGAATGATATGCTTGAAAAGGATTTAGCTCCGGACATTGTTATATATAATAC TCTGGTGGATGGATTCTGCCGAGCGGGGAGGCTTAAGGATGCTCAAGAACTTTTCAAAACAATGCGTGATCAAGGGCAGACTCCGAATGTCGTTACATGT GGTAGTTTACTAAGTGGCTGGTTCAGAATAGGTCAAGCAGATACAGCATTAGCTCTATTTGAAGAAATGGAGGGTAGTTGGTTGAAGCCTAATGTTGTCA TCTATAATATTCTTATTGATGGTTTGTGGAAAGCAGGGAGGGTTAAGGAAGCACGAGACATGTTTTCTAGGCTATGTAAAGACCAGAATTTACAGCCCGA TGTCCGTGTATATACCGTAGTAATTAATGGACTCTGTAGACATGGTTTAGTGGATGAAGCATTTGATTTGTTCAGAACAATGGGGAGAAGTTCGTTGTTT TTGCCAAATAACGTCTCTTACAATGTGATTATCCATGGGTTTCTTCGACATAAAGATCCTATTGAAGCGGTAGACCTGATTCAAGAGATGGTGTCTAAGG GTTTCTCAGCTGATGCAACCACATTGTCTTTGCTGATAGAATTGTTGCCCCGAAATCAGTTGGATCATCCACTTCTCAGAAAGATGCTAGATGATTCTAA TGCATATAGTGAAATACAAGTAGTCCGGTAA
AA sequence Show only first row Show all	>Lus10022861 pacid=23159974 polypeptide=Lus10022861 locus=Lus10022861.g ID=Lus10022861.BGIv1.0 annot-version=v1.0 MAKTIFYHGNGSQFQFRRKTGMAKFPFSSSSSSAASTMPLSAHFISKQTTAPRASGSPSFSTVEAALDSFDRMLCMKPMPHIAEFGRLFTSLVKLNAYEA AVSVSRQMELVGLQSNFFRFSMVIRCFCKLGRIDFAFSVLGKVFKLGIPPNIWTFSSLIDGLCKEGEIAHAVKFLEKIVALGYRPNVIIYSSIINGLCKH GFVTKALDVFLKMKDRKCSPDVVSYSCLIHGLCVLSRRKEAMMLLNEMGETNIVPDAFTYSILIDSFCKDGMVLEAKAIVKIMIQSGQHPDIVTFSSLLD GYCLRNEIDKARKLFDFLVRRGCKPNVCTYSIMINGYCKSQRLVEGKQLLNDMLEKDLAPDIVIYNTLVDGFCRAGRLKDAQELFKTMRDQGQTPNVVTC GSLLSGWFRIGQADTALALFEEMEGSWLKPNVVIYNILIDGLWKAGRVKEARDMFSRLCKDQNLQPDVRVYTVVINGLCRHGLVDEAFDLFRTMGRSSLF LPNNVSYNVIIHGFLRHKDPIEAVDLIQEMVSKGFSADATTLSLLIELLPRNQLDHPLLRKMLDDSNAYSEIQVVR

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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
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Lus10022861 [exp]	0	1
AT5G48040			Ubiquitin carboxyl-terminal hy...		Lus10011327 [exp]	3.2	0.8884
AT1G54560		PCR1, ATXIE, XI...	MYOSIN XI E, Myosin family pro...		Lus10005521 [exp]	5.2	0.8899
AT4G31210			DNA topoisomerase, type IA, co...		Lus10026991 [exp]	6.6	0.9028
AT3G48110		EDD1	EMBRYO-DEFECTIVE-DEVELOPMENT 1...		Lus10042915 [exp]	11.8	0.8887
AT3G24440		VRN5, VIL1	VERNALIZATION 5, VIN3-LIKE 1, ...		Lus10043250 [exp]	12.2	0.8639
AT3G03710		PDE326, PNP, RI...	resistant to inhibition with F...		Lus10013636 [exp]	12.7	0.8900
AT3G03710		PDE326, PNP, RI...	resistant to inhibition with F...		Lus10001331 [exp]	18.2	0.8820
AT5G04710			Zn-dependent exopeptidases sup...		Lus10034142 [exp]	19.1	0.8697
AT2G26350		PEX10, ATPEX10	peroxin 10 (.1)		Lus10020007 [exp]	21.9	0.8726
AT5G07900			Mitochondrial transcription te...		Lus10040817 [exp]	24.7	0.8627

Compare expression of checked genes

Lus10022861 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.