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 AT1G48900 835 / 0 Signal recognition particle, SRP54 subunit protein (.1.2) AT5G49500 741 / 0 Signal recognition particle, SRP54 subunit protein (.1) AT1G15310 723 / 0 SRP54-1, ATHSRP54A signal recognition particle 54 kDa subunit (.1) AT5G03940 188 / 7e-53 SRP54CP, CPSRP54, FFC SIGNAL RECOGNITION PARTICLE 54 KDA SUBUNIT CHLOROPLAST PROTEIN, FIFTY-FOUR CHLOROPLAST HOMOLOGUE, 54 CHLOROPLAST PROTEIN, chloroplast signal recognition particle 54 kDa subunit (.1) AT5G66970 136 / 2e-37 P-loop containing nucleoside triphosphate hydrolases superfamily protein (.1) AT2G45770 121 / 4e-30 FRD4, CPFTSY FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2) AT4G30600 100 / 3e-22 signal recognition particle receptor alpha subunit 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 Lus10029330 [exp] 686 / 0 AT1G48900 816 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Lus10017023 [exp] 196 / 1e-55 AT5G03940 892 / 0.0 SIGNAL RECOGNITION PARTICLE 54 KDA SUBUNIT CHLOROPLAST PROTEIN, FIFTY-FOUR CHLOROPLAST HOMOLOGUE, 54 CHLOROPLAST PROTEIN, chloroplast signal recognition particle 54 kDa subunit (.1) Lus10021346 [exp] 191 / 8e-54 AT5G03940 903 / 0.0 SIGNAL RECOGNITION PARTICLE 54 KDA SUBUNIT CHLOROPLAST PROTEIN, FIFTY-FOUR CHLOROPLAST HOMOLOGUE, 54 CHLOROPLAST PROTEIN, chloroplast signal recognition particle 54 kDa subunit (.1) Lus10041358 [exp] 117 / 9e-29 AT2G45770 583 / 0.0 FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2) Lus10036570 [exp] 99 / 6e-22 AT2G45770 564 / 0.0 FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2) Lus10017891 [exp] 97 / 7e-21 AT4G30600 933 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Lus10035066 [exp] 96 / 1e-20 AT4G30600 943 / 0.0 signal recognition particle receptor alpha subunit family 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.016G112800 [exp] 882 / 0 AT1G48900 887 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Potri.001G253500 [exp] 865 / 0 AT1G48900 882 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Potri.009G047902 [exp] 421 / 2e-144 AT1G48900 487 / 7e-171 Signal recognition particle, SRP54 subunit protein (.1.2) Potri.016G078600 [exp] 197 / 4e-56 AT5G03940 928 / 0.0 SIGNAL RECOGNITION PARTICLE 54 KDA SUBUNIT CHLOROPLAST PROTEIN, FIFTY-FOUR CHLOROPLAST HOMOLOGUE, 54 CHLOROPLAST PROTEIN, chloroplast signal recognition particle 54 kDa subunit (.1) Potri.006G211500 [exp] 191 / 1e-53 AT5G03940 859 / 0.0 SIGNAL RECOGNITION PARTICLE 54 KDA SUBUNIT CHLOROPLAST PROTEIN, FIFTY-FOUR CHLOROPLAST HOMOLOGUE, 54 CHLOROPLAST PROTEIN, chloroplast signal recognition particle 54 kDa subunit (.1) Potri.014G078800 [exp] 118 / 5e-29 AT2G45770 593 / 0.0 FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2) Potri.018G105900 [exp] 95 / 2e-20 AT4G30600 856 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Potri.006G183600 [exp] 93 / 7e-20 AT4G30600 869 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Potri.002G155400 [exp] 64 / 6e-12 AT2G45770 215 / 1e-69 FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0023 [flax] [poplar] P-loop_NTPase PF00448 [flax] [poplar] SRP54 SRP54-type protein, GTPase domain CL0123 [flax] [poplar] HTH PF02978 [flax] [poplar] SRP_SPB Signal peptide binding domain CL0123 [flax] [poplar] PF02881 [flax] [poplar] SRP54_N SRP54-type protein, helical bundle domain
Representative CDS sequence Show only first row Show all	>Lus10016213 pacid=23142715 polypeptide=Lus10016213 locus=Lus10016213.g ID=Lus10016213.BGIv1.0 annot-version=v1.0 ATGGTGTTGGCACAGTTAGGAGGGAGTATCTCCCGGGCAATACAGCAGATGAGCAATGCCACGGTTATTGATGAGAAGGCGTTGAACGAGTGTCTCAATG AGATTACCCGTGCTCTGCTGCAAGCTGATGTGCAGTTCAAGCTCGTCAAGGAAATGCTGACCAATATCAAGAACATTGTCAATCTTAGTGATCTTGCTGC TGGTCACAATAAGCGGAAGATCATCCAACAGGCAATATTCACTGAGCTCTGCAAAATGTTGGATCCTGGGAAGCCTTCTTTCACGCCAAAAAAAGGGAAA CCAAGTGTTGTTATGTTTGTTGGTTTACAAGGTTCTGGGAAAACTACAACATGTACAAAATATGCTTATTATCATCAGAAAAAGGGTTGGAAGCCTGCTT TAGTTTGTGCCGATACATTCAGAGCTGGTGCTTTCGATCAGCTGAAGCAGAATGCGACCAAAGCTAAGATCCCATTTTATGGAAGCTACATGGAATCAGA TCCCGTAAGAATTGCTGCAGAAGGTGTAGAAAGGTTCAAGAATGAGAATTGTGATTTGATAATAGTTGACACTAGTGGGCGTCATAAACAGGAAGCTTCT CTTTTCGAAGAAATGCGCCAAGTTGCTGAAGCCACGAAACCAGATCTCGTCATATTTGTCATGGATAGTAGCATAGGTCAAGCTGCATTTGATCAGGCTC AAGCATTTAAGCAAAGTATTTCTGTTGGAGCTGTGATTATTACGAAAATGGATGGTCATGCCAAGGGTGGTGGTGCTCTTAGTGCTGTTGCTGCAACAAA GAGCCCTGTCATATTCATAGGAACGGGAGAGCACATGGATGAATTCGAAGTATTTGACGTTAAGCCGTTTGTCAGTCGTCTTTTAGGCATGGGTGACTTG TCCGGATTCATGGATAAGATACAAGAGGTTGTTCCCATGGATCAACAACCTGAACTTCTGCAGATGCTCCAAGACGGTACATTTACTTTAAGGATTATGT ATGAGCAATTTCAGAACCTTCTCAAAATGGGTCCTATTGGCCAGGTATTCTCAATGCTTCCTGGATTCAGCTCCGAACTGATGCCCAAAGGCCGTGAGAA AGAAAGCCAAGCAAAGATCAAGCGCTATATGACCATGATGGACTCTATGACGAACGAAGGCAAATTATCTTCTCTTTCAGTTTTGTTTCTTCATGTTTAT ATGGTTCTTTTACTGATCTGCCCCTTGTGTGCAGAGTTGGACAGCACGAATCCGAAACTGATGAACGAGTCCCGAATGATGAGAATCGCAAGGGGATCCG GACGTCCGATCAGAGACGTAGTGGAGATGCTGGACGAGTACAAGCGGCTGGCCAAGGTATGGAGCAAAATGAAGGGGCTGAAGATCCCGAAGAAGGGCGA CATGAGCGCCTTGTCGAGGAACATGAACGCTCAGCAGATGAGCAAAGCTCTTCCTCCGCAGATGTTGAAGCAGATCGGCGGCATGGGTGGGTTGCAGAGT TTGATGAAGCAGATGGGTTCCGGCGGCATGGGCAAGGACATGATGGGAATGTTCGGCGGCGGAGGCGACAGTTAA
AA sequence Show only first row Show all	>Lus10016213 pacid=23142715 polypeptide=Lus10016213 locus=Lus10016213.g ID=Lus10016213.BGIv1.0 annot-version=v1.0 MVLAQLGGSISRAIQQMSNATVIDEKALNECLNEITRALLQADVQFKLVKEMLTNIKNIVNLSDLAAGHNKRKIIQQAIFTELCKMLDPGKPSFTPKKGK PSVVMFVGLQGSGKTTTCTKYAYYHQKKGWKPALVCADTFRAGAFDQLKQNATKAKIPFYGSYMESDPVRIAAEGVERFKNENCDLIIVDTSGRHKQEAS LFEEMRQVAEATKPDLVIFVMDSSIGQAAFDQAQAFKQSISVGAVIITKMDGHAKGGGALSAVAATKSPVIFIGTGEHMDEFEVFDVKPFVSRLLGMGDL SGFMDKIQEVVPMDQQPELLQMLQDGTFTLRIMYEQFQNLLKMGPIGQVFSMLPGFSSELMPKGREKESQAKIKRYMTMMDSMTNEGKLSSLSVLFLHVY MVLLLICPLCAELDSTNPKLMNESRMMRIARGSGRPIRDVVEMLDEYKRLAKVWSKMKGLKIPKKGDMSALSRNMNAQQMSKALPPQMLKQIGGMGGLQS LMKQMGSGGMGKDMMGMFGGGGDS

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DESeq2's median of ratios [FLAX]

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	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
AT1G48900			Signal recognition particle, S...		Lus10016213 [exp]	0	1
AT5G06580			FAD-linked oxidases family pro...		Lus10015987 [exp]	4.0	0.9209
AT5G40490			RNA-binding (RRM/RBD/RNP motif...		Lus10014562 [exp]	4.9	0.9295
AT5G50230			Transducin/WD40 repeat-like su...		Lus10018081 [exp]	6.0	0.9127
AT1G16300		GAPCP-2	glyceraldehyde-3-phosphate deh...		Lus10000872 [exp]	6.1	0.9379
AT2G36460			Aldolase superfamily protein (...		Lus10023870 [exp]	9.3	0.9339
AT2G45060			Uncharacterised conserved prot...		Lus10042878 [exp]	9.7	0.8976
AT4G25320	AT-hook		AT hook motif DNA-binding fami...		Lus10015027 [exp]	9.7	0.9110
AT3G26340			N-terminal nucleophile aminohy...		Lus10011369 [exp]	10.4	0.9290
AT1G12640			MBOAT (membrane bound O-acyl t...		Lus10006325 [exp]	11.4	0.9082
AT1G70770			Protein of unknown function DU...		Lus10003709 [exp]	11.4	0.9286

Compare expression of checked genes

Lus10016213 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.