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 AT3G04760 534 / 0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G09900 336 / 7e-108 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) AT1G79080 245 / 1e-73 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 239 / 9e-71 RPF2 rna processing factor 2 (.1) AT1G62930 237 / 6e-70 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63130 236 / 1e-69 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63400 230 / 9e-68 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63080 229 / 4e-67 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62590 228 / 2e-66 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G62680 225 / 4e-66 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 Lus10014660 [exp] 1073 / 0 AT3G04760 522 / 3e-180 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Lus10014245 [exp] 228 / 7e-67 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10023863 [exp] 229 / 7e-66 AT5G12100 728 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10019524 [exp] 224 / 2e-63 AT3G54980 716 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10031792 [exp] 216 / 1e-62 AT1G79080 539 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10031215 [exp] 213 / 2e-61 AT1G79080 544 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10027914 [exp] 215 / 6e-61 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10042529 [exp] 218 / 8e-61 AT5G65560 498 / 1e-160 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10039056 [exp] 214 / 2e-60 AT5G64320 832 / 0.0 Pentatricopeptide repeat (PPR) 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.019G019300 [exp] 550 / 0 AT3G04760 776 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.013G047000 [exp] 549 / 0 AT3G04760 781 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.002G109500 [exp] 335 / 2e-107 AT1G09900 855 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1) Potri.011G144300 [exp] 265 / 6e-81 AT1G79080 742 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.001G457300 [exp] 258 / 2e-78 AT1G79080 712 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G150100 [exp] 241 / 5e-72 AT1G62930 442 / 8e-149 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.017G032100 [exp] 235 / 7e-70 AT1G62930 451 / 2e-152 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.009G105600 [exp] 231 / 9e-67 AT5G39710 1022 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G242500 [exp] 227 / 2e-66 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.013G032600 [exp] 227 / 3e-66 AT1G12700 493 / 2e-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	>Lus10000554 pacid=23145680 polypeptide=Lus10000554 locus=Lus10000554.g ID=Lus10000554.BGIv1.0 annot-version=v1.0 ATGAGTGTAGTGTTCTCCACCGATTTCATCCCTCTAGGCCGCCACCTCCACTTACCACCAAGAGTTTTCACCTCCATTAAACCCAGAAACTGCTTCAATG ACAACCACAACCACAACAACAACAACTACTACGCTGGAGCTTCGTTAACTCTTTCGGAGCAGACGAAGCTGACCAATTTCACCAAACAAATCAACAGGGC CGCAAGATTAGGGAACTACGAGGAGAGTCTCTACCACCTGGAGCTGAGCATCATTCAAGGCTGCGAGCCCGATGTGATTTCCTGTACCAAGCTGATGAAG GCCTTCTTCAAAATAAAAAAGTACGACAAGGCGCTCAGGGTTATGGAAATAATGGAGATGTATGGTAATCCTGACCTCTTCTCTTACAACGCCTTGTTCG CTTGCTTCTGTAAAATCAACGAGATCGACAAGGCGAATCAGGTGATCGAACGAATGAAGAGCAGAGGCTACACCCCTGACGCCGTTACCTACAACGTCAT GATTCGCAATTACTGCTCGAAGAGGAAACTCGATATGGCATTCAAGGTGTTCGACGAAATGCTCAAGGATGGATGCCAGCCGTCTGTCATTACTTACACT ACCTTGATCGAAGCATTGATCACCGTTCGCCGATCGATCGACGACGCACTCAACCTCTTTGAAGACATGCTAGTGAAGGGCGTCACGCCCGATTCTTATG TCTACAATGTCGTGATTCAAGGACTGTGCAAACATGGGATGGCGGACCGAGCTCTCGAGGTAGTTTGTAGCTTCAAGTTCGAGTTTCGGCTGAACGCCTT CTGTTACAACGCACTGTTAATGGTTGCTCTTCGGCAAGGTAAATTGAAGCTGGCGGCGTCGTTGATGTCGAAGATGATTTCCGCCGGGTATAAGCCTGAC CTCGTTACTTGCAGCAATTTGATTAGCGTGTTATGCCGCGAGCAGATAGTGGATGAAGCAGTGATGCTTGTGAAGTCCATGAAAAGGAATGGGCTCAAAC CTGATGCGGATTGCTACGATCCTTTGATTTCTTCCATCTGCAAGGAAGGGAAATTCGACCTGGCGGTTAAGGTTTTGAATTATATGATCGCTGATGGTTG CGTTCCCAACGTAGTAAACTACAACGGGATCATGTCAGGGTTGTGCAAGTCTGGGAATGCTGATTACGCGCTGGAAATGTTCGAAAAACTTGACGAAGTT GGGTGTCCGCCGGATGTCAGCTCTTACAACATGATGTTCAGCGCCTTGTGGCATGCCGGAGACAGGTACCGAGCGTTGGAAGTTGTGATGAAGATGCTCC AGGACGATGGAATTGACCCGGATGTGTTCACTTACCACACGCTTATCTCATGCTTGAGTCGAGATGGGATGGTTGACGAAGCCAAAGGATTGTTGGATGA TATGCGGGAGAGCAAGTGTAAGCCAACTGCGGTGACCTATAACATCGTGATTCTCGGGTTGTGCAAGACAAGGCGGATTCACGAAGCGATTGATATGCTA GCATCGATGGTTGTTGACGATGGTTGCCAGCCTAACGAAACCACTTACATGACATTGGCAGAAGGAATCGGCTGCTTGGGATGTAATGCCAAAGCTCAAC AGTTGGCGAAATCTCTTTACAAAATGGAAGCCATCTCCGAGCATTCGATGGAACACTTAGCGGCAAAGTTTCCTTTGCCCAACGATGCTAAAGATCTTCC TGAGGTGGCACTTCGTGTTCCAGAAAACGTGGATTAA
AA sequence Show only first row Show all	>Lus10000554 pacid=23145680 polypeptide=Lus10000554 locus=Lus10000554.g ID=Lus10000554.BGIv1.0 annot-version=v1.0 MSVVFSTDFIPLGRHLHLPPRVFTSIKPRNCFNDNHNHNNNNYYAGASLTLSEQTKLTNFTKQINRAARLGNYEESLYHLELSIIQGCEPDVISCTKLMK AFFKIKKYDKALRVMEIMEMYGNPDLFSYNALFACFCKINEIDKANQVIERMKSRGYTPDAVTYNVMIRNYCSKRKLDMAFKVFDEMLKDGCQPSVITYT TLIEALITVRRSIDDALNLFEDMLVKGVTPDSYVYNVVIQGLCKHGMADRALEVVCSFKFEFRLNAFCYNALLMVALRQGKLKLAASLMSKMISAGYKPD LVTCSNLISVLCREQIVDEAVMLVKSMKRNGLKPDADCYDPLISSICKEGKFDLAVKVLNYMIADGCVPNVVNYNGIMSGLCKSGNADYALEMFEKLDEV GCPPDVSSYNMMFSALWHAGDRYRALEVVMKMLQDDGIDPDVFTYHTLISCLSRDGMVDEAKGLLDDMRESKCKPTAVTYNIVILGLCKTRRIHEAIDML ASMVVDDGCQPNETTYMTLAEGIGCLGCNAKAQQLAKSLYKMEAISEHSMEHLAAKFPLPNDAKDLPEVALRVPENVD

---

DESeq2's median of ratios [FLAX]

Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

---

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
AT3G04760			Pentatricopeptide repeat (PPR-...		Lus10000554 [exp]	0	1
AT4G01050		TROL	thylakoid rhodanese-like (.1)		Lus10005947 [exp]	1.7	0.9364
AT5G48730			Pentatricopeptide repeat (PPR)...		Lus10022787 [exp]	2.4	0.9225
AT4G37380			Tetratricopeptide repeat (TPR)...		Lus10010385 [exp]	3.5	0.9300
AT2G15690			Tetratricopeptide repeat (TPR)...		Lus10032688 [exp]	6.5	0.9199
AT5G48910		LPA66	LOW PSII ACCUMULATION 66, Pent...		Lus10010908 [exp]	6.6	0.8967
AT4G01050		TROL	thylakoid rhodanese-like (.1)		Lus10029448 [exp]	6.7	0.9161
AT4G16390		SVR7	suppressor of variegation 7, p...		Lus10038788 [exp]	6.9	0.9291
AT1G79080			Pentatricopeptide repeat (PPR)...		Lus10031216 [exp]	8.5	0.9002
AT1G15510		VAC1, ATECB2	VANILLA CREAM 1, ARABIDOPSIS E...		Lus10026460 [exp]	9.2	0.9016
AT4G02990		RUG2, BSM	RUGOSA 2, BELAYA SMERT, Mitoch...		Lus10014877 [exp]	9.4	0.9135

Compare expression of checked genes

Lus10000554 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.