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 AT3G10400 216 / 4e-70 U11/U12-31K U11/U12-31K, RNA recognition motif and CCHC-type zinc finger domains containing protein (.1) AT4G20030 75 / 1e-16 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G23830 66 / 2e-13 AtGRP4, GR-RBP4, GRP4 glycine-rich RNA-binding protein 4 (.1.2) AT5G64200 63 / 2e-11 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT1G23860 60 / 8e-11 SRZ21, SRZ-21, RSZP21, RSZ21, At-RSZ21 RS-containing zinc finger protein 21 (.1.2.3.4) AT1G53720 62 / 1e-10 ATCYP59, CYP59 cyclophilin 59 (.1) AT1G60650 60 / 3e-10 AtRZ-1b AtRZ-1b, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2) AT4G13860 56 / 3e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G46020 56 / 4e-10 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT4G19610 59 / 8e-10 nucleotide binding;nucleic acid binding;RNA binding (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10037960 [exp] 392 / 2e-139 AT3G10400 240 / 2e-79 U11/U12-31K, RNA recognition motif and CCHC-type zinc finger domains containing protein (.1) Lus10002699 [exp] 62 / 5e-11 AT3G55460 138 / 3e-39 SC35-like splicing factor 30 (.1) Lus10006936 [exp] 59 / 9e-11 AT4G20030 137 / 4e-42 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10026925 [exp] 59 / 1e-10 AT4G31580 184 / 2e-59 RS-containing zinc finger protein 22, serine/arginine-rich 22 (.1.2) Lus10031772 [exp] 61 / 2e-10 AT1G53720 639 / 0.0 cyclophilin 59 (.1) Lus10015146 [exp] 57 / 3e-10 AT3G08000 145 / 5e-46 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10000953 [exp] 61 / 4e-10 AT2G39670 588 / 0.0 Radical SAM superfamily protein (.1.2) Lus10002222 [exp] 59 / 5e-10 AT3G53460 263 / 1e-87 chloroplast RNA-binding protein 29 (.1.2.3.4) Lus10003957 [exp] 59 / 5e-10 AT5G64200 217 / 9e-70 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2)
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.010G227500 [exp] 254 / 2e-85 AT3G10400 223 / 7e-73 U11/U12-31K, RNA recognition motif and CCHC-type zinc finger domains containing protein (.1) Potri.003G074900 [exp] 68 / 8e-14 AT4G20030 164 / 2e-52 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.005G097500 [exp] 63 / 4e-11 AT1G53720 667 / 0.0 cyclophilin 59 (.1) Potri.019G050600 [exp] 61 / 5e-11 AT1G23860 131 / 3e-39 RS-containing zinc finger protein 21 (.1.2.3.4) Potri.003G023800 [exp] 61 / 6e-11 AT5G64200 207 / 4e-66 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.008G033000 [exp] 61 / 7e-11 AT1G60650 172 / 3e-52 AtRZ-1b, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2) Potri.010G228700 [exp] 61 / 9e-11 AT5G04280 172 / 7e-52 AtRZ-1c, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1) Potri.014G157300 [exp] 57 / 2e-10 AT3G08000 129 / 2e-39 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.008G022280 [exp] 57 / 3e-10 AT3G20930 203 / 2e-65 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.008G022200 [exp] 59 / 6e-10 AT3G20930 427 / 3e-149 RNA-binding (RRM/RBD/RNP motifs) family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0511 [flax] [poplar] Retroviral_zf PF00098 [flax] [poplar] zf-CCHC Zinc knuckle CL0221 [flax] [poplar] RRM PF00076 [flax] [poplar] RRM_1 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
Representative CDS sequence Show only first row Show all	>Lus10038693 pacid=23143118 polypeptide=Lus10038693 locus=Lus10038693.g ID=Lus10038693.BGIv1.0 annot-version=v1.0 ATGGGCAAAGGCCGGGGAAGCGACAGCGACGAAGACGACACCTTCTACTACCGATATGCCTCCGTCTCAGCCCCACCTCCACCGTCGTCGACGTCCACTT CCGCCTCCAACCGAAACCCAAAGCCGAGCAATTCAGGCGGCCTAGCTCCGTCCAAGTCCACTGTCTACGTATCGAATCTTGATTTCACCCTCACCAACTC CGATCTACACACCCTCTTCTCCACCTTCGGCAAGATAGCTCGAGTCACCGTCCTCAAGGACAGGGCCACCCGCCAATCCCGCGGCGTGGCCTTCATCCAG TTCGTCTCCCGCGACGACGCTGTCTCCGCCGCCCGCCAGATGGACAAGAAGATCCTCAACGGGCGAACCCTATCGGCGAACATCGCCAACGACAACGGTC GGGCGACTGAGTTCATCAAGAAGAGGGTTTATCTCGATAAGAGCAGGTGCTACGAGTGCGGAGAGGCTGGTCATCTCTCGTATGAGTGCCCCAAGAATCA GTTGGGCCCTAGGGAGAGGCCGGCGCCGAAGCGGACTCGAAGAGGCGGCGGCGGCGGTGGAGGAGGGGTTCATGGGAGGAAGGAGGTGGAAACGGCGGCG GAGGATGACGACGACGAAGGCGTGAATGATGCGCAAGGATTCGAAGATGAGAATTGGGCTTCGGTGGTTGATGGGAAGGCAGATGAGAGATTGTTGACAG GAGATGAAGATGGAAACGGTTTAGGGAAGAAGAAGGTGAAGAAAGCCAGTTATTTCAGCGACGAGAGTGATGACGAGGATTGA
AA sequence Show only first row Show all	>Lus10038693 pacid=23143118 polypeptide=Lus10038693 locus=Lus10038693.g ID=Lus10038693.BGIv1.0 annot-version=v1.0 MGKGRGSDSDEDDTFYYRYASVSAPPPPSSTSTSASNRNPKPSNSGGLAPSKSTVYVSNLDFTLTNSDLHTLFSTFGKIARVTVLKDRATRQSRGVAFIQ FVSRDDAVSAARQMDKKILNGRTLSANIANDNGRATEFIKKRVYLDKSRCYECGEAGHLSYECPKNQLGPRERPAPKRTRRGGGGGGGGVHGRKEVETAA EDDDDEGVNDAQGFEDENWASVVDGKADERLLTGDEDGNGLGKKKVKKASYFSDESDDED

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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
AT3G10400		U11/U12-31K	U11/U12-31K, RNA recognition m...		Lus10038693 [exp]	0	1
AT4G09550		ATGIP1	ARABIDOPSIS ATGCP3 INTERACTING...		Lus10040621 [exp]	1.4	0.8366
AT3G24490	Trihelix		Alcohol dehydrogenase transcri...		Lus10017725 [exp]	3.2	0.8542
AT1G12260	NAC	ANAC007, VND4, ...	VASCULAR RELATED NAC-DOMAIN PR...		Lus10019638 [exp]	3.5	0.8258
AT3G04670	WRKY	ATWRKY39, WRKY3...	WRKY DNA-binding protein 39 (....		Lus10033857 [exp]	4.5	0.8258
AT3G20890			RNA-binding (RRM/RBD/RNP motif...		Lus10030140 [exp]	6.3	0.7773
AT3G10490	NAC	ANAC051, ANAC05...	Arabidopsis NAC domain contain...		Lus10038670 [exp]	6.7	0.8218
AT2G33845			Nucleic acid-binding, OB-fold-...		Lus10015411 [exp]	7.7	0.8154
AT5G65520			Tetratricopeptide repeat (TPR)...		Lus10035948 [exp]	8.2	0.7788
AT2G15980			Tetratricopeptide repeat (TPR)...		Lus10020712 [exp]	11.6	0.7843
AT2G28105			unknown protein		Lus10021424 [exp]	11.8	0.7890

Compare expression of checked genes

Lus10038693 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.