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 AT1G21690 564 / 0 RFC4, EMB1968 replication factor C 4, embryo defective 1968, ATPase family associated with various cellular activities (AAA) AT1G63160 200 / 9e-62 EMB2811, RFC2 EMBRYO DEFECTIVE 2811, replication factor C 2 (.1) AT1G77470 197 / 6e-60 EMB2810, RFC5, RFC3 replication factor C 5, EMBRYO DEFECTIVE 2810, replication factor C subunit 3 (.1) AT5G27740 114 / 9e-29 RFC3, EMB251, EMB161, EMB2775 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) AT5G22010 73 / 9e-14 ATRFC1 replication factor C 1, replication factor C1 (.1) AT4G24790 70 / 7e-13 AAA-type ATPase family protein (.1.2) AT5G45720 70 / 7e-13 AAA-type ATPase family protein (.1.2) AT1G24290 64 / 4e-11 AAA-type ATPase family protein (.1) AT4G18820 59 / 2e-09 AAA-type ATPase family protein (.1) AT1G04730 54 / 1e-07 CTF18 CHROMOSOME TRANSMISSION FIDELITY 18, P-loop containing nucleoside triphosphate hydrolases 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 Lus10024504 [exp] 201 / 4e-62 AT1G63160 615 / 0.0 EMBRYO DEFECTIVE 2811, replication factor C 2 (.1) Lus10008003 [exp] 200 / 1e-61 AT1G63160 605 / 0.0 EMBRYO DEFECTIVE 2811, replication factor C 2 (.1) Lus10025689 [exp] 195 / 2e-59 AT1G77470 568 / 0.0 replication factor C 5, EMBRYO DEFECTIVE 2810, replication factor C subunit 3 (.1) Lus10018144 [exp] 193 / 2e-58 AT1G77470 564 / 0.0 replication factor C 5, EMBRYO DEFECTIVE 2810, replication factor C subunit 3 (.1) Lus10019391 [exp] 112 / 6e-28 AT5G27740 643 / 0.0 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) Lus10018130 [exp] 99 / 8e-26 AT1G21690 70 / 2e-15 replication factor C 4, embryo defective 1968, ATPase family associated with various cellular activities (AAA) Lus10043248 [exp] 97 / 3e-22 AT5G27740 561 / 0.0 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) Lus10013372 [exp] 84 / 1e-17 AT5G22010 1128 / 0.0 replication factor C 1, replication factor C1 (.1) Lus10041764 [exp] 76 / 8e-15 AT5G27740 269 / 3e-84 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.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.005G181300 [exp] 603 / 0 AT1G21690 551 / 0.0 replication factor C 4, embryo defective 1968, ATPase family associated with various cellular activities (AAA) Potri.002G080100 [exp] 543 / 0 AT1G21690 505 / 1e-180 replication factor C 4, embryo defective 1968, ATPase family associated with various cellular activities (AAA) Potri.003G123200 [exp] 203 / 6e-63 AT1G63160 587 / 0.0 EMBRYO DEFECTIVE 2811, replication factor C 2 (.1) Potri.002G080066 [exp] 202 / 1e-59 AT1G77380 751 / 0.0 amino acid permease 3 (.1) Potri.002G081200 [exp] 194 / 7e-59 AT1G77470 577 / 0.0 replication factor C 5, EMBRYO DEFECTIVE 2810, replication factor C subunit 3 (.1) Potri.019G040000 [exp] 115 / 3e-29 AT5G27740 621 / 0.0 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) Potri.004G061700 [exp] 67 / 5e-12 AT4G18820 1031 / 0.0 AAA-type ATPase family protein (.1) Potri.005G120901 [exp] 67 / 6e-12 AT5G27740 240 / 8e-72 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) Potri.003G093400 [exp] 66 / 8e-12 AT5G27740 182 / 2e-53 replication factor C 3, EMBRYO DEFECTIVE 2775, EMBRYO DEFECTIVE 251, EMBRYO DEFECTIVE 161, ATPase family associated with various cellular activities (AAA) (.1) Potri.004G230300 [exp] 67 / 1e-11 AT2G02480 1189 / 0.0 STICHEL, AAA-type ATPase family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0604 [flax] [poplar] post-AAA PF08542 [flax] [poplar] Rep_fac_C Replication factor C C-terminal domain CL0023 [flax] [poplar] P-loop_NTPase PF00004 [flax] [poplar] AAA ATPase family associated with various cellular activities (AAA)
Representative CDS sequence Show only first row Show all	>Lus10028543 pacid=23164522 polypeptide=Lus10028543 locus=Lus10028543.g ID=Lus10028543.BGIv1.0 annot-version=v1.0 ATGGCGCCAGTTCTGCAGAGCTCACAACCCTGGGTCGAAAAATATCGGCCGAGGCAGGTGAAAGACGTAGCTCATCAGGATGAAGTGGTGCGGGTTCTCA CAAATACACTCGAGACTTCAAATTGTCCGCACATGCTCTTTTATGGACCTCCTGGAACTGGCAAGACCACTACTGCCTTGGCCATTGCTCACCAGCTCTT CGGACCTGAGCACTATAAGTCGCGTGTTTTGGAGCTGAATGCAAGTGATGACCGTGGCATCAGTGTTGTCCGCACTAAGATCAAGGATTTTGCTGGTGTA GCTGTTGATACGAGGCCACATCAGGGGGATTATCCTTGTCCACCATTTAAGATTATTATCCTTGACGAGGCTGATTCAATGACAGAGGATGCTCAGGCAT GTAATGCCTTGAGGCGTACAATGGAGACACATTCCAAAGTGACAAGATTTTTCTTTATTTGCAATTACATCAGCAGGATTATAGAGCCGCTTGCATCGAG GTGTGCAAAATTCAGGTTCAAGCCACTTTCAGAAGAAATCATGAGCAGCCGTATACTGCACATCTGCAAGGAGGAAGGTCTCTTTCTTGATGACGAGGCT GTTTCAACCTTGGGCAATATATCTCAAGGGGATCTTCGCCGAGCAATCACATACTTGCAGGGTGCTGCTCGACTGTATGGGTCATCAATTTCATCTAAGG ACCTAATAAATGTATCTGGGGTTGTTCCCCAAAGCGTGGTCGAGTCGCTCTTTGCAGCCTGTAAAAACGGCAACTTCGATTTGGCAGATAAGGAAGTCAA TAATGTAGTTTCAGATGGGTACCCAGTCTCCCAGATGATTTCCCAGTTATTCGATATTATCGTCGAAGCTGATGACATATCGGACGAACAGAAGGCTCGC ATATGCAAGAGCATGGGTTCAGCAGATAAGTGTCTGGTAGATGGAGCCGACGAGTACTTGCAGCTGCTGGAAGTCGCCAGCAACATCATTAAAGCACTCC ATAACATGCCACAAGAGTTCTCTTACGAAAGTTAG
AA sequence Show only first row Show all	>Lus10028543 pacid=23164522 polypeptide=Lus10028543 locus=Lus10028543.g ID=Lus10028543.BGIv1.0 annot-version=v1.0 MAPVLQSSQPWVEKYRPRQVKDVAHQDEVVRVLTNTLETSNCPHMLFYGPPGTGKTTTALAIAHQLFGPEHYKSRVLELNASDDRGISVVRTKIKDFAGV AVDTRPHQGDYPCPPFKIIILDEADSMTEDAQACNALRRTMETHSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEIMSSRILHICKEEGLFLDDEA VSTLGNISQGDLRRAITYLQGAARLYGSSISSKDLINVSGVVPQSVVESLFAACKNGNFDLADKEVNNVVSDGYPVSQMISQLFDIIVEADDISDEQKAR ICKSMGSADKCLVDGADEYLQLLEVASNIIKALHNMPQEFSYES

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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
AT1G21690		RFC4, EMB1968	replication factor C 4, embryo...		Lus10028543 [exp]	0	1
AT1G05970			RNA-binding (RRM/RBD/RNP motif...		Lus10033646 [exp]	1.4	0.8979
AT2G47580		U1A	spliceosomal protein U1A (.1)		Lus10003358 [exp]	2.0	0.8968
AT4G23860			PHD finger protein-related (.1...		Lus10023084 [exp]	5.5	0.8673
AT1G16510			SAUR-like auxin-responsive pro...		Lus10040643 [exp]	7.5	0.7729
AT3G59110			Protein kinase superfamily pro...		Lus10006544 [exp]	8.1	0.8437
AT3G53730			Histone superfamily protein (....		Lus10005898 [exp]	10.6	0.8630
AT3G18380		SHH2	SAWADEE homeodomain homolog 2,...		Lus10017944 [exp]	11.0	0.8019
AT1G15910		FDM1	factor of DNA methylation 1, X...		Lus10037986 [exp]	11.2	0.8374
AT4G17760			damaged DNA binding;exodeoxyri...		Lus10035367 [exp]	11.7	0.7991
AT1G60660		B5 #5, B5#5, AT...	ARABIDOPSIS CYTOCHROME B5-LIKE...		Lus10012954 [exp]	12.3	0.8037

Compare expression of checked genes

Lus10028543 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.