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 AT5G03940 867 / 0 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) AT1G48900 214 / 1e-62 Signal recognition particle, SRP54 subunit protein (.1.2) AT1G15310 191 / 2e-54 SRP54-1, ATHSRP54A signal recognition particle 54 kDa subunit (.1) AT5G49500 189 / 3e-53 Signal recognition particle, SRP54 subunit protein (.1) AT2G45770 157 / 5e-43 FRD4, CPFTSY FERRIC CHELATE REDUCTASE DEFECTIVE 4, signal recognition particle receptor protein, chloroplast (FTSY) (.1), signal recognition particle receptor protein, chloroplast (FTSY) (.2) AT4G30600 105 / 1e-23 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 Lus10021346 [exp] 1066 / 0 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) Lus10016213 [exp] 202 / 9e-58 AT1G48900 890 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Lus10029330 [exp] 184 / 1e-51 AT1G48900 816 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Lus10041358 [exp] 155 / 3e-42 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] 135 / 3e-34 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] 116 / 4e-27 AT4G30600 933 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Lus10035066 [exp] 111 / 1e-25 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.016G078600 [exp] 908 / 0 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] 907 / 0 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.001G253500 [exp] 210 / 3e-61 AT1G48900 882 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Potri.016G112800 [exp] 206 / 1e-59 AT1G48900 887 / 0.0 Signal recognition particle, SRP54 subunit protein (.1.2) Potri.014G078800 [exp] 152 / 6e-41 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] 108 / 1e-24 AT4G30600 856 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Potri.006G183600 [exp] 107 / 3e-24 AT4G30600 869 / 0.0 signal recognition particle receptor alpha subunit family protein (.1) Potri.002G155400 [exp] 92 / 1e-21 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) Potri.009G047902 [exp] 87 / 3e-18 AT1G48900 487 / 7e-171 Signal recognition particle, SRP54 subunit protein (.1.2)
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	>Lus10017023 pacid=23172974 polypeptide=Lus10017023 locus=Lus10017023.g ID=Lus10017023.BGIv1.0 annot-version=v1.0 ATGGAGGCTGTACAGTTCTCTACCGTTGCCTCCCGCTGTTTTGCTTCAAATTCATTGCCCAGGAGCTCCAATAGCTACGCCAGCAGTAAATGTGCGAGGA ATCCGGCTCAGGGAGTTCGCTCTTCGTGGAGCGGGTCAAGCAGCGTCGCTTCTCTTTCGTCCAGTAATCCGTTCACTAGACAACTGCGGGGTTGGCTGAA TGGCAGGAGAGTTTCCCGGAGAAGAGATACACGTAGCGTTGTGAGAGCAGAGATGTTCGGACAGTTGACAAGCGGGCTTGAAACTGCGTGGAACAAGCTC AAAGGAGCAGAGGTTTTGACGAAGGAGAATATTGAGGAGCCTATGAGGGATATTAGGAGAGCTCTTCTGGAAGCTGATGTAAGCCTTCCAGTTGTTAGAA GATTTGTTCAGTCAGTTAGCGAGGAAGCTGTTGGGGTAGGGCTGATACGAGGAGTCAGACCTGATCAGCAGTTGGTCAAGATTGTACGTGACGAGCTTGT GAAATTAATGGGAGGAGAGGTTTCTGAACTGGTTTTTGCAAAATTTAGTCCTACAGTCATATTACTGGCTGGTTTACAAGGAGTTGGGAAGACAACCGTC TGCGCAAAGCTAGCAAACTATCTCAAGAAACAGGGAAAGAGTTGCATGCTTGTAGCTGGAGATGTGTACAGACCTGCTGCTATTGACCAACTTGTCATCT TGGGCGAACAGGTGGGTGTTCCTGTTTACACGGAGGGGACTGATGTTAAGCCATCCGAAATAGCAAAGAGAGGCTTAGCGGAGGCGAAAAAGAAGAAAGT GGATGTTTTAATCGTAGATACCGCTGGAAGGCTTCAGATAGACAAAGGAATGATGGATGAATTGAAAGACGTGAAGAAAGTCTTGAACCCGACAGAGGTC TTGCTTGTCGTGGATGCAATGACTGGCCAAGAAGCTGCAGCATTGGTTACAAGTTTCAATCTTGAAATTGGTATTACGGGTGCCATTTTGACAAAGCTAG ATGGAGATTCCAGGGGTGGTGCCGCTCTGAGTGTTAAAGAGGTATCAGGAAAACCAATCAAACTTGTGGGACGAGGAGAGCGGATGGAGGACTTGGAACC TTTCTACCCTGATCGTATGGCTGGACGTATCTTAGGAATGGGAGATGTTCTCTCATTCGTGGAGAAAGCACAAGAAGTGATGAAACAAGAAGATGCCGAA GACCTTCAAAAGAAGATAATGAGCGCAAAATTCGACTTCAATGATTTTCTGAAGCAAACTCGTGCAGTTGCACGCATGGGTTCCATGACTCGCGTCCTTA GCATGATCCCAGGGATGGGAAAGGTAACTCCTGCACAAATTCGTGATGCTGAGAAGAGTCTTAAGATAATGGAAGCTATGATTGATGTAATGACACCAGA GGAAAGAGAGAAGCCCGAATTGTTGGCCGAGTCACCAGTTAGAAGAAGAAGAATTGCCCAAGAATCCGGGAAGACGGAACAGCAGGTGAGTCAACTTGTT GCTCAACTGTTCCAAATGCGTGTCCGGATGAAGAATCTAATGGGCGCTATGGAGGGTGGATCGATTCCTGCTCTGAGCGATCTTGAGGATTCCCTCAAGG CCGAACAGAAGGCTCCTCCTGGTACTGCAAGAAGGAAGAAAAGAGCAGAGTCCAGGAAGCAATTTCAAGGCTCAACATCTCAAAGGTCTAGTCCTCGTGG TTTCGGTTCAAGCAATTAG
AA sequence Show only first row Show all	>Lus10017023 pacid=23172974 polypeptide=Lus10017023 locus=Lus10017023.g ID=Lus10017023.BGIv1.0 annot-version=v1.0 MEAVQFSTVASRCFASNSLPRSSNSYASSKCARNPAQGVRSSWSGSSSVASLSSSNPFTRQLRGWLNGRRVSRRRDTRSVVRAEMFGQLTSGLETAWNKL KGAEVLTKENIEEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKFSPTVILLAGLQGVGKTTV CAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTEGTDVKPSEIAKRGLAEAKKKKVDVLIVDTAGRLQIDKGMMDELKDVKKVLNPTEV LLVVDAMTGQEAAALVTSFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMKQEDAE DLQKKIMSAKFDFNDFLKQTRAVARMGSMTRVLSMIPGMGKVTPAQIRDAEKSLKIMEAMIDVMTPEEREKPELLAESPVRRRRIAQESGKTEQQVSQLV AQLFQMRVRMKNLMGAMEGGSIPALSDLEDSLKAEQKAPPGTARRKKRAESRKQFQGSTSQRSSPRGFGSSN

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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
AT5G03940		SRP54CP, CPSRP5...	SIGNAL RECOGNITION PARTICLE 54...		Lus10017023 [exp]	0	1
AT1G09900			Pentatricopeptide repeat (PPR-...		Lus10031565 [exp]	1.4	0.9416
AT1G09900			Pentatricopeptide repeat (PPR-...		Lus10015112 [exp]	4.0	0.9342
AT2G27680			NAD(P)-linked oxidoreductase s...		Lus10020579 [exp]	4.4	0.9108
AT5G03940		SRP54CP, CPSRP5...	SIGNAL RECOGNITION PARTICLE 54...		Lus10021346 [exp]	7.1	0.9339
AT1G12800			Nucleic acid-binding, OB-fold-...		Lus10008475 [exp]	7.1	0.9295
AT1G08520		V157, ALB1, ALB...	PIGMENT DEFECTIVE EMBRYO 166, ...		Lus10005013 [exp]	8.2	0.9301
AT4G34830		PDE346, MRL1	PIGMENT DEFECTIVE 346, MATURAT...		Lus10007565 [exp]	9.5	0.9216
AT1G03160		FZL	FZO-like (.1.2)		Lus10014666 [exp]	9.5	0.9282
					Lus10005791 [exp]	10.2	0.9278
AT4G01800		AtcpSecA, AGY1,...	Arabidopsis thaliana chloropla...		Lus10038031 [exp]	10.2	0.9150

Compare expression of checked genes

Lus10017023 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.