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 AT3G47120 296 / 1e-98 C3HZnF RNA recognition motif (RRM)-containing protein (.1) AT5G19960 65 / 2e-11 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT4G39260 60 / 3e-11 ATGRP8, CCR1, GR-RBP8 glycine-rich RNA-binding protein 8, GLYCINE-RICH PROTEIN 8, cold, circadian rhythm, and RNA binding 1 (.1.2.3.4) AT5G64200 62 / 9e-11 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT5G50250 62 / 9e-11 CP31B chloroplast RNA-binding protein 31B (.1) AT3G52660 62 / 3e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT3G52380 61 / 3e-10 CP33, PDE322 PIGMENT DEFECTIVE 322, chloroplast RNA-binding protein 33 (.1) AT2G35410 61 / 4e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G06210 58 / 4e-10 RNA binding (RRM/RBD/RNP motifs) family protein (.1) AT4G36690 61 / 6e-10 ATU2AF65A U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10017757 [exp] 66 / 7e-12 AT5G19960 227 / 7e-72 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10014814 [exp] 65 / 3e-11 AT1G71800 350 / 2e-116 cleavage stimulating factor 64 (.1) Lus10017923 [exp] 63 / 1e-10 AT1G71800 306 / 4e-98 cleavage stimulating factor 64 (.1) Lus10030207 [exp] 63 / 1e-10 AT4G00830 601 / 0.0 LHP1-Interacting Factor 2, RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3), RNA-binding (RRM/RBD/RNP motifs) family protein (.4) Lus10002689 [exp] 62 / 2e-10 AT4G00830 591 / 0.0 LHP1-Interacting Factor 2, RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2), RNA-binding (RRM/RBD/RNP motifs) family protein (.3), RNA-binding (RRM/RBD/RNP motifs) family protein (.4) Lus10028714 [exp] 62 / 2e-10 AT1G71800 308 / 1e-100 cleavage stimulating factor 64 (.1) Lus10014565 [exp] 58 / 8e-10 AT1G13690 277 / 9e-97 ATPase E1 (.1) Lus10004641 [exp] 58 / 9e-10 AT1G13690 277 / 8e-97 ATPase E1 (.1) Lus10038932 [exp] 60 / 2e-09 AT5G51300 897 / 0.0 splicing factor-related (.1.2.3)
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.009G044900 [exp] 381 / 4e-132 AT3G47120 276 / 8e-91 RNA recognition motif (RRM)-containing protein (.1) Potri.018G074100 [exp] 66 / 6e-12 AT5G19960 202 / 3e-62 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.005G165400 [exp] 64 / 2e-11 AT5G64200 202 / 2e-63 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.002G095800 [exp] 62 / 5e-11 AT5G64200 204 / 5e-65 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.002G061200 [exp] 62 / 2e-10 AT1G71800 354 / 3e-117 cleavage stimulating factor 64 (.1) Potri.006G208500 [exp] 58 / 2e-10 AT5G06210 160 / 1e-51 RNA binding (RRM/RBD/RNP motifs) family protein (.1) Potri.015G057400 [exp] 60 / 4e-10 AT5G61030 157 / 8e-47 glycine-rich RNA-binding protein 3 (.1) Potri.004G155300 [exp] 58 / 4e-10 AT2G21660 145 / 3e-45 GLYCINE-RICH RNA-BINDING PROTEIN 7, "cold, circadian rhythm, and rna binding 2", GLYCINE RICH PROTEIN 7, cold, circadian rhythm, and rna binding 2 (.1.2) Potri.001G126400 [exp] 60 / 1e-09 AT5G51300 790 / 0.0 splicing factor-related (.1.2.3) Potri.003G023800 [exp] 59 / 1e-09 AT5G64200 207 / 4e-66 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0221 [flax] [poplar] RRM PF00076 [flax] [poplar] RRM_1 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) CL0537 [flax] [poplar] CCCH_zf PF00642 [flax] [poplar] zf-CCCH Zinc finger C-x8-C-x5-C-x3-H type (and similar)
Representative CDS sequence Show only first row Show all	>Lus10018227 pacid=23179399 polypeptide=Lus10018227 locus=Lus10018227.g ID=Lus10018227.BGIv1.0 annot-version=v1.0 ATGAATCCCTTGACGCTGGTGAAGCGTATCCAGAACATAAACTCTAAGGAAGCTTCTCTAGGGATTTCAGAGGAAGCTTCTTGGCACGCAAAATACAAAG ATTCAGCTTACATCTACGTCGGCGGGATTCCTTTCGACCTCACCGAAGGCGATCTCCTCGCCGTGTTTGCTCAGTGTGGAGAGGTTGTGGATGTGAATCT AGTCAGAGACAAGGGTACGGGTAAATCGAAAGGTTTTGCCTTTGTTGCTTATGAGGATCAAAGGAGTACAACTCTTGCTGTAGACAATCTGAATGGAGCT CAGGTTCTTGGCCGGGTGATAAGGGTTGATCATGTTACCAAGTACAAGAAGATAGAAGAAGATGACGAGGAGACAGCTCAGAAGAAGAGGGAGGCTCGAG GTGTATGTCGTGCTTTTCAGAGAGGCAATTGTACTTATGGAGCTGGTTGCAAATTTTCACACGATGAGCAGAGAGCAGCAAACACCGGCTGGGGTGCTAA GGACGATAAGAGCCCAACATGGGGACACGATAAGTTTGATGGTCAACATAAGGGCGAGAAAGTCTTTGGCAAGGAAAGGCCCAGTCAGATGCAATCTAAA CACAGTGATGAGAGAGAGGAAAGGAGATCAAGAAATTACAATGATCGTGAAAGTAAGGAGCAGCCACGAGAAGACAATTATCAGCAACGAGATGAGAAGA GGGCAGGAAGGTCGAAGGATGGTGAATACAGGGGAAAGTCCAGGGAGAATGATTATAACAGAGATGAAAAGAGGCTAAAAAGACATGTCGATGACGATAA GGGATCAAGAAGGCATGAAAGAGAAGGTGATTATGGAAGGGGAGATGAGAGATCTAGTAGACGCACCTCTGACTACTATGAATCAAGGTCGAGGGAAGAT GACCATAGAGGGGAGGATAAAAGTTCCAGAGGTAAAGGACCTAGGCACTATTCTAGGGAAGGTAGAGACCAAAGGAGAGACGATAAACAGTCTTCTCGTG GTAGGGATTCTTCTTCTGATCGTCATAAAAGGGATGGTGACTGGCATAGATAG
AA sequence Show only first row Show all	>Lus10018227 pacid=23179399 polypeptide=Lus10018227 locus=Lus10018227.g ID=Lus10018227.BGIv1.0 annot-version=v1.0 MNPLTLVKRIQNINSKEASLGISEEASWHAKYKDSAYIYVGGIPFDLTEGDLLAVFAQCGEVVDVNLVRDKGTGKSKGFAFVAYEDQRSTTLAVDNLNGA QVLGRVIRVDHVTKYKKIEEDDEETAQKKREARGVCRAFQRGNCTYGAGCKFSHDEQRAANTGWGAKDDKSPTWGHDKFDGQHKGEKVFGKERPSQMQSK HSDEREERRSRNYNDRESKEQPREDNYQQRDEKRAGRSKDGEYRGKSRENDYNRDEKRLKRHVDDDKGSRRHEREGDYGRGDERSSRRTSDYYESRSRED DHRGEDKSSRGKGPRHYSREGRDQRRDDKQSSRGRDSSSDRHKRDGDWHR

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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
AT3G47120	C3HZnF		RNA recognition motif (RRM)-co...		Lus10018227 [exp]	0	1
AT5G12410			THUMP domain-containing protei...		Lus10019037 [exp]	3.3	0.8546
AT1G77750			Ribosomal protein S13/S18 fami...		Lus10037359 [exp]	5.7	0.8207
AT2G18196			Heavy metal transport/detoxifi...		Lus10010147 [exp]	5.7	0.8472
AT3G52040			unknown protein		Lus10039586 [exp]	5.7	0.8527
AT3G56510			RNA-binding (RRM/RBD/RNP motif...		Lus10014585 [exp]	6.9	0.8437
AT5G60340			P-loop containing nucleoside t...		Lus10040792 [exp]	8.2	0.8186
AT3G23390			Zinc-binding ribosomal protein...		Lus10040983 [exp]	11.5	0.8463
AT5G59440		ATTMPK.2, ATTMP...	ZEUS1, ARABIDOPSIS THALIANA TH...		Lus10027801 [exp]	15.0	0.8344
AT2G34160			Alba DNA/RNA-binding protein (...		Lus10043279 [exp]	16.7	0.8334
AT1G51130			Nse4, component of Smc5/6 DNA ...		Lus10042459 [exp]	18.0	0.8269

Compare expression of checked genes

Lus10018227 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.