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 AT3G42860 232 / 1e-72 zinc knuckle (CCHC-type) family protein (.1) AT5G13920 70 / 7e-13 GRF zinc finger / Zinc knuckle protein (.1) AT4G36020 58 / 3e-09 CSDP1 cold shock domain protein 1 (.1) AT2G17870 51 / 6e-07 ATCSP3 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) AT1G54930 50 / 1e-06 GRF zinc finger / Zinc knuckle protein (.1) AT5G63920 46 / 5e-05 TOP3A, AtTOP3alpha topoisomerase 3alpha (.1) AT1G75560 44 / 8e-05 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) AT3G43590 42 / 0.0005 zinc knuckle (CCHC-type) family protein (.1) AT3G55340 42 / 0.0006 PHIP1 phragmoplastin interacting protein 1 (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10012906 [exp] 454 / 8e-160 AT3G42860 184 / 1e-54 zinc knuckle (CCHC-type) family protein (.1) Lus10028449 [exp] 60 / 5e-10 AT4G36020 158 / 3e-47 cold shock domain protein 1 (.1) Lus10041902 [exp] 58 / 3e-09 AT4G36020 159 / 2e-47 cold shock domain protein 1 (.1) Lus10023805 [exp] 45 / 0.0001 AT5G45400 764 / 0.0 Replication factor-A protein 1-related (.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.001G318100 [exp] 209 / 2e-64 AT3G42860 211 / 8e-66 zinc knuckle (CCHC-type) family protein (.1) Potri.T125504 [exp] 78 / 9e-16 AT5G13920 106 / 1e-25 GRF zinc finger / Zinc knuckle protein (.1) Potri.009G112676 [exp] 78 / 2e-15 AT5G13920 116 / 7e-28 GRF zinc finger / Zinc knuckle protein (.1) Potri.T125604 [exp] 77 / 7e-15 AT5G13920 115 / 1e-27 GRF zinc finger / Zinc knuckle protein (.1) Potri.007G057100 [exp] 56 / 1e-08 AT4G36020 127 / 3e-35 cold shock domain protein 1 (.1) Potri.005G112800 [exp] 54 / 4e-08 AT2G17870 86 / 1e-19 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.004G193500 [exp] 51 / 1e-06 AT3G43590 299 / 3e-93 zinc knuckle (CCHC-type) family protein (.1) Potri.004G161800 [exp] 47 / 9e-06 AT1G75560 273 / 2e-92 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) Potri.005G234700 [exp] 47 / 1e-05 AT1G75560 278 / 2e-94 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) Potri.009G155500 [exp] 47 / 2e-05 AT3G43590 286 / 9e-89 zinc knuckle (CCHC-type) family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0167 [flax] [poplar] Zn_Beta_Ribbon PF06839 [flax] [poplar] zf-GRF GRF zinc finger CL0511 [flax] [poplar] Retroviral_zf PF00098 [flax] [poplar] zf-CCHC Zinc knuckle
Representative CDS sequence Show only first row Show all	>Lus10030560 pacid=23140775 polypeptide=Lus10030560 locus=Lus10030560.g ID=Lus10030560.BGIv1.0 annot-version=v1.0 ATGGCGGCTACTCGCCATTTCGACGACGAGGACGATGAGTTCCTATTTCAGGTGGCTTCCGCCGAAGCTGAAGCGCTCTCCAGATTCAACGCCGATGCCA CCAATAAGCGCCGGAAGTTCGGCGGCGGCTATGATGGAGACGAAGATCAGCAGCTGAATAAAATGGCTGTGGCCATCGATAGTACGCCGAAGTTGAAGGA GACTGAGGAAGGAGATTACATGGCTGCGCTTAGAGGAAGCAACAGTCTCGCTTGGCAGCAGAATGCGCTGAATCGCTCCGGTTCTAGAGTGAACTCTGTC GTGTGTGGTGCGGTGAGCTCTGGCGCGGGTGGCGGTGGTTTTTCCAGCGGCGGCGGCGGCGGCGATTTCAATAAATCTGAGCGGCAGCAGCCTTCGGTCT CCGAGAAGGATTGTCCGTGCGGACAGGGAGCTTGTGTTGTTTTCACCGCTAATACTGAACGGAATCGTGGACGTCAGTTTTTCCGATGCCCTGTGCGACA GGAAAATGGAGGATGTGGTTTCTTCGAGTGGTGTGACAATGCTTCTGGAAACAATCACAACAGCTCTGCTGCCAGTTCGGATCTTCAATGTCCTTGCGGT GCTGGATTCTGCAAGCTCCTCACTGCAAAAACTGGGAAGAACGTCGGCCACCAATTCTACTGTTGCCCTGCAAACCAGGAAAACTCTTGTGGTTTCTTCA AGTGGTTCAACGAGACTGAAGTGGCAGCCAATCTTCCTTCTCATACTTACACCACTTCAAAAGATACGAGCAGCATTGGCTATGGTGCAAGATCCGAGTC TTCTCCCTGCTTCAAATGCAGTAAGCCTGGACACTGGGCAAAGGACTGCCCAGTCTCTTCTGTACCTGTTCCTACAAGTGCTTACAATGCTTCCAAAGAT ACGGGCAGCATTGGCTACGGTGCAAGATCCGAGTCTTCTCCCTGCTTCAAATGCAGTAAGCCTGGACACTGGGCAAAGGACTGCCCAGTCTCTTCTGTAC CTGTTCCTACAAGTGCTTACAATGCTTCCAAAGATACGAGCAGCATTGGCTACGGTGCAAGATCCGAGTCTTCTCCCTGCTTCAAATGCGGTCAGGCTGG ACATTGGTTGAAGGATTGCGTCTCTTCTTCCTCCGGTTCTAGATCGACATCATCATTCGGAGGAGGAAGCAGCACTACCTGTTACAAATGCAATAAGCCT GGACACTGGGCAAGGGACTGCACCAGTTGA
AA sequence Show only first row Show all	>Lus10030560 pacid=23140775 polypeptide=Lus10030560 locus=Lus10030560.g ID=Lus10030560.BGIv1.0 annot-version=v1.0 MAATRHFDDEDDEFLFQVASAEAEALSRFNADATNKRRKFGGGYDGDEDQQLNKMAVAIDSTPKLKETEEGDYMAALRGSNSLAWQQNALNRSGSRVNSV VCGAVSSGAGGGGFSSGGGGGDFNKSERQQPSVSEKDCPCGQGACVVFTANTERNRGRQFFRCPVRQENGGCGFFEWCDNASGNNHNSSAASSDLQCPCG AGFCKLLTAKTGKNVGHQFYCCPANQENSCGFFKWFNETEVAANLPSHTYTTSKDTSSIGYGARSESSPCFKCSKPGHWAKDCPVSSVPVPTSAYNASKD TGSIGYGARSESSPCFKCSKPGHWAKDCPVSSVPVPTSAYNASKDTSSIGYGARSESSPCFKCGQAGHWLKDCVSSSSGSRSTSSFGGGSSTTCYKCNKP GHWARDCTS

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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
AT3G42860			zinc knuckle (CCHC-type) famil...		Lus10030560 [exp]	0	1
AT1G49870			unknown protein		Lus10013902 [exp]	4.6	0.7765
AT5G27870			Plant invertase/pectin methyle...		Lus10020313 [exp]	5.3	0.7755
AT3G24495		ATMSH7, MSH7, M...	MUTS HOMOLOG 6-2, ARABIDOPSIS ...		Lus10000017 [exp]	7.5	0.7326
AT1G18530			EF hand calcium-binding protei...		Lus10027243 [exp]	8.9	0.7507
AT4G35190		LOG5	LONELY GUY 5, Putative lysine ...		Lus10025117 [exp]	9.5	0.7455
					Lus10038470 [exp]	13.6	0.7140
AT2G26710		CYP72B1, CYP734...	PHYB ACTIVATION TAGGED SUPPRES...		Lus10017771 [exp]	17.3	0.7326
AT1G12600			UDP-N-acetylglucosamine (UAA) ...		Lus10009315 [exp]	18.9	0.7657
AT1G18720			Protein of unknown function (D...		Lus10021661 [exp]	21.8	0.7593
AT5G66240			Transducin/WD40 repeat-like su...		Lus10017157 [exp]	23.1	0.7544

Compare expression of checked genes

Lus10030560 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.