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 AT3G16090 614 / 0 AtHrd1A homolog of yeast Hrd1, RING/U-box superfamily protein (.1) AT1G65040 585 / 0 AtHrd1B homolog of yeast Hrd1, RING/U-box superfamily protein (.1.2.3) AT4G25230 110 / 1e-25 RIN2 RPM1 interacting protein 2 (.1.2) AT5G51450 94 / 5e-20 RIN3 RPM1 interacting protein 3 (.1.2) AT5G01960 64 / 9e-11 RING/U-box superfamily protein (.1) AT2G44581 59 / 3e-10 RING/U-box superfamily protein (.1) AT2G44578 55 / 7e-09 RING/U-box superfamily protein (.1) AT2G01150 52 / 7e-08 RHA2B RING-H2 finger protein 2B (.1) AT4G12190 50 / 9e-08 RING/U-box superfamily protein (.1) AT1G73760 54 / 1e-07 RING/U-box 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 Lus10023477 [exp] 910 / 0 AT3G16090 650 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Lus10031728 [exp] 106 / 4e-24 AT4G25230 843 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10031152 [exp] 103 / 4e-23 AT4G25230 821 / 0.0 RPM1 interacting protein 2 (.1.2) Lus10000996 [exp] 60 / 3e-09 AT5G01960 626 / 0.0 RING/U-box superfamily protein (.1) Lus10011027 [exp] 59 / 7e-09 AT5G01960 619 / 0.0 RING/U-box superfamily protein (.1) Lus10006787 [exp] 55 / 2e-08 AT1G49230 159 / 9e-49 RING/U-box superfamily protein (.1) Lus10013497 [exp] 55 / 4e-08 AT1G73760 199 / 1e-62 RING/U-box superfamily protein (.1) Lus10028009 [exp] 52 / 1e-07 AT5G59550 57 / 5e-10 zinc finger (C3HC4-type RING finger) family protein (.1) Lus10032265 [exp] 52 / 1e-07 AT3G19950 54 / 2e-09 RING/U-box 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.013G088400 [exp] 709 / 0 AT3G16090 613 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Potri.019G051500 [exp] 699 / 0 AT3G16090 661 / 0.0 homolog of yeast Hrd1, RING/U-box superfamily protein (.1) Potri.001G124000 [exp] 108 / 5e-25 AT4G25230 830 / 0.0 RPM1 interacting protein 2 (.1.2) Potri.003G109400 [exp] 105 / 6e-24 AT4G25230 790 / 0.0 RPM1 interacting protein 2 (.1.2) Potri.016G141200 [exp] 61 / 8e-10 AT5G01960 546 / 0.0 RING/U-box superfamily protein (.1) Potri.006G111800 [exp] 59 / 4e-09 AT5G01960 572 / 0.0 RING/U-box superfamily protein (.1) Potri.006G164516 [exp] 52 / 2e-08 AT3G46620 63 / 6e-13 zinc finger (C3HC4-type RING finger) family protein (.1) Potri.009G073900 [exp] 55 / 3e-08 AT5G58580 102 / 9e-26 TOXICOS EN LEVADURA 63 (.1) Potri.013G160000 [exp] 55 / 8e-08 AT5G01960 545 / 0.0 RING/U-box superfamily protein (.1) Potri.005G139900 [exp] 55 / 1e-07 AT4G34040 160 / 1e-41 RING/U-box superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0229 [flax] [poplar] RING PF00097 [flax] [poplar] zf-C3HC4 Zinc finger, C3HC4 type (RING finger)
Representative CDS sequence Show only first row Show all	>Lus10040359 pacid=23174139 polypeptide=Lus10040359 locus=Lus10040359.g ID=Lus10040359.BGIv1.0 annot-version=v1.0 ATGATGCAGTTACGAACATATGCGAGCCTAAGTTTGGTTGCTGCCCTGTCAGTTATTTATCATGCATTCAACACAAGAGGCCAGTTTTATCCAGCTATGG TCTATCTATCTACCTCCAAAATCAGTTTGGTACTACTTCTGAACATGGGACTGGTAATGATGTGCATGTTGTGGCAACTGACCAAGCGGGTGTTCCTTGG GACACTTCGGGAAGCTGAAGTTGAGAGGTTGAATGAACAATCGTGGAGAGAAGTTATGGAAATCCTCTTTGCAATCACTATCTTCAGGCAGGATTTTTCA GTGCCATTCCTTGCTATGGTCACAGCCCTTCTACTGATCAAGGCTCTGCACTGGCTGGCTCAAAAGAGGGTTGAATACATTGAGACAACTCCATCTGTGC CTATGAGGTCTCAAGTTCGGATAGTATCATTTCTTGGGTTTCTTCTGGTTGTCGACAGTTTGTTTCTGTACAGCAACATAAAGTATTTGATTGACACTCG ACAAGCTTCTGTTTCTCTGTTCTTTGCCTTTGAGTATATGATACTTGCAACCACAACAGTGTCAACATTTGTAAAATACGTCTTCTATGTGAGTGACATG CTAATGGAAGGACAATGGGAAAGGAAGGCTGTCTACACCTTCTACTTGGAACTTATCCGGGACTTGCTTCACCTGTCGATGTATATATGCTTCTTTCTTG TGATCTTCATGAACTATGGTGTGCCTCTACACTTGATTCGAGAACTCTACGAGACTTTCAGAAATTTCAAAATCCGTGTTGCTGATTATCTTCGTTATAG GAAGATTGCTTCAAACATGAATGACCGGTTTCCAGATGCAACGCCAGAAGAGCTTGATGTAAGTGATGCAACCTGCATTATTTGCCGCGAAGAGATGACC ACTGCCAAAAAATTGGTTTGTGGACATCTTTTCCATGTTCATTGTCTACGATCCTGGTTGGAGCGACAGCACACTTGCCCTACATGCAGAGCACCGGTTG TACCACCTGAAAATGGTGCAAGTACGTCAGGTGGCCAACATGGATCTTGGCCGAACACTAATCAAAATTCCAATAGCAATGCTAGTGCATCCGGTCAAGG TTCTGCTGATGATGTGGCTGATAATAGTTTGAGCCGGCATCAGGCAAGACTCCAAGCAGCCGCAGCAGCTGCAGCTGTATACGAAAGATCATTTGTCTAT CCTCCTCCAAATACTCTAGTGTGGTCTCCTGGGTATGCTGTATTTCCTCCGGGACAGAGACCTGCCAATGAAACTCCAAATGCTGTCGCACCGGAGGAAG GGAATCTGGATGGACAACCTCAACCTCAGTTTCAGTTCCATGCTGCTGGGTCTTCAAGCATGCCTCAACACATGTTTGTCCCTATCCAGACAGCCGGTGG CAGTTTCGATCGTATAGAAACACCTGGTGGTGTCGGGCTTTCAAGTTCCGAGACGGAAGCACAGAGAAAGCTCCTGCAAAACCAGATCGAGGCAACCTCC CCATCCCTTAGTTTGTTTTGGTACCCTGTCCTCCTTTGTGTACACTCATAA
AA sequence Show only first row Show all	>Lus10040359 pacid=23174139 polypeptide=Lus10040359 locus=Lus10040359.g ID=Lus10040359.BGIv1.0 annot-version=v1.0 MMQLRTYASLSLVAALSVIYHAFNTRGQFYPAMVYLSTSKISLVLLLNMGLVMMCMLWQLTKRVFLGTLREAEVERLNEQSWREVMEILFAITIFRQDFS VPFLAMVTALLLIKALHWLAQKRVEYIETTPSVPMRSQVRIVSFLGFLLVVDSLFLYSNIKYLIDTRQASVSLFFAFEYMILATTTVSTFVKYVFYVSDM LMEGQWERKAVYTFYLELIRDLLHLSMYICFFLVIFMNYGVPLHLIRELYETFRNFKIRVADYLRYRKIASNMNDRFPDATPEELDVSDATCIICREEMT TAKKLVCGHLFHVHCLRSWLERQHTCPTCRAPVVPPENGASTSGGQHGSWPNTNQNSNSNASASGQGSADDVADNSLSRHQARLQAAAAAAAVYERSFVY PPPNTLVWSPGYAVFPPGQRPANETPNAVAPEEGNLDGQPQPQFQFHAAGSSSMPQHMFVPIQTAGGSFDRIETPGGVGLSSSETEAQRKLLQNQIEATS PSLSLFWYPVLLCVHS

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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
AT3G16090		AtHrd1A	homolog of yeast Hrd1, RING/U-...		Lus10040359 [exp]	0	1
AT5G45160			Root hair defective 3 GTP-bind...		Lus10038333 [exp]	3.5	0.8332
AT5G28850			Calcium-binding EF-hand family...		Lus10027963 [exp]	4.9	0.8329
AT1G21660			Chaperone DnaJ-domain superfam...		Lus10018854 [exp]	6.9	0.8140
AT2G40730		CTEXP	cytoplasmic tRNA export protei...		Lus10034240 [exp]	8.4	0.8275
AT1G59610		DRP2B, CF1, ADL...	Dynamin related protein 2B, dy...		Lus10030357 [exp]	8.6	0.8398
AT4G16070			Mono-/di-acylglycerol lipase, ...		Lus10037710 [exp]	15.8	0.8170
AT4G24100			Protein kinase superfamily pro...		Lus10033230 [exp]	16.1	0.8254
AT5G45160			Root hair defective 3 GTP-bind...		Lus10018282 [exp]	17.8	0.8321
AT5G20490		XI-17, ATXIK, X...	MYOSIN XI-17, MYOSIN XI K, Myo...		Lus10021570 [exp]	18.2	0.8194
AT1G31780			unknown protein		Lus10035691 [exp]	21.2	0.8061

Compare expression of checked genes

Lus10040359 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.