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 AT2G21440 701 / 0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G18810 60 / 1e-09 SCL28, At-SCL28 SC35-like splicing factor 28 (.1) AT5G64200 60 / 2e-09 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT4G19610 59 / 2e-08 nucleotide binding;nucleic acid binding;RNA binding (.1) AT4G24770 55 / 1e-07 CP31, ATRBP33, ATRBP31, RBP31 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) AT3G11400 55 / 1e-07 ATEIF3G1, EIF3G1 eukaryotic translation initiation factor 3G1 (.1.2) AT2G35410 54 / 2e-07 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G55460 53 / 3e-07 SCL30, At-SCL30 SC35-like splicing factor 30 (.1) AT2G37220 53 / 4e-07 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G71800 53 / 7e-07 CSTF64 cleavage stimulating factor 64 (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10022044 [exp] 1749 / 0 AT2G21440 832 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10000953 [exp] 65 / 3e-10 AT2G39670 588 / 0.0 Radical SAM superfamily protein (.1.2) Lus10018277 [exp] 63 / 1e-09 AT4G19610 770 / 0.0 nucleotide binding;nucleic acid binding;RNA binding (.1) Lus10028823 [exp] 59 / 8e-09 AT3G11400 459 / 9e-165 eukaryotic translation initiation factor 3G1 (.1.2) Lus10040636 [exp] 59 / 2e-08 AT4G19610 700 / 0.0 nucleotide binding;nucleic acid binding;RNA binding (.1) Lus10002699 [exp] 57 / 2e-08 AT3G55460 138 / 3e-39 SC35-like splicing factor 30 (.1) Lus10017459 [exp] 57 / 2e-08 AT3G11400 447 / 3e-160 eukaryotic translation initiation factor 3G1 (.1.2) Lus10023802 [exp] 57 / 3e-08 AT5G64200 217 / 1e-68 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10030482 [exp] 56 / 6e-08 AT3G11400 459 / 9e-165 eukaryotic translation initiation factor 3G1 (.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.009G120900 [exp] 844 / 0 AT2G21440 750 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.008G196700 [exp] 65 / 3e-11 AT5G18810 168 / 8e-52 SC35-like splicing factor 28 (.1) Potri.003G149600 [exp] 59 / 1e-08 AT4G19610 646 / 0.0 nucleotide binding;nucleic acid binding;RNA binding (.1) Potri.008G056600 [exp] 58 / 1e-08 AT3G55460 134 / 6e-38 SC35-like splicing factor 30 (.1) Potri.010G203200 [exp] 58 / 1e-08 AT3G55460 144 / 1e-41 SC35-like splicing factor 30 (.1) Potri.008G060000 [exp] 57 / 2e-08 AT3G11400 422 / 5e-150 eukaryotic translation initiation factor 3G1 (.1.2) Potri.010G199000 [exp] 57 / 2e-08 AT3G11400 422 / 4e-150 eukaryotic translation initiation factor 3G1 (.1.2) Potri.003G023800 [exp] 56 / 3e-08 AT5G64200 207 / 4e-66 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.005G165400 [exp] 55 / 9e-08 AT5G64200 202 / 2e-63 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.012G090200 [exp] 55 / 1e-07 AT4G24770 310 / 7e-105 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1)
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)
Representative CDS sequence Show only first row Show all	>Lus10042589 pacid=23181798 polypeptide=Lus10042589 locus=Lus10042589.g ID=Lus10042589.BGIv1.0 annot-version=v1.0 ATGGGAAAGAAAGGAAAAGATCGAAAAAATGGATCTAAGGAGTCGGGAACTGATCACAGTCCCAGTACGGTTTTCGTCTCTAACTTGCCTTACTCCTTCA CCAAGGATCAGCTAGAGGAAACATTCAGTGATGTTGGTCCAATTAGGCGCTGCTTTATGGTTACACCAAAGGGTTCAACCGAGCACCGTGGTACTGCATT TGTCCAATTTGCTGTATCAGAAGATGCTAACCGTGCAATTGAACTTAAGAAAGATACATCTATCGAAGGTCGACAAATTGCAGTTAAACATGCTTTGCAA CGTGCTACTCTTGAACAGCGCCGGGCAAAGGCTCAAGAAGTAGAAGGTAAGCCCGACAAGGATGCAACTGAGGTAGATGGTAATAATGCAAAAAATGTAG CCGATTCAGACATCCATGAAGTGGAGAACCATACAAGCACACTTCCTGCTGCAGTTGACAAAGTTCCTCACAAAGTGAAAAAATCAGTGGGAAAAAAGGA AGCAAAGAAGGCTACACAAGTTTTGAACGACCTCAATGATAAAGTGAATTGTTCTGAAAAGCAACGGGTTGCAAGGACTGTGATAGTTGGTGGTCTTGCA AATGATGTTATGGCTGACGACGTTCATGCTCTTTCCAAAGGGGTTGGCGCTGTGTGTTCCGTGACTTATCCTCTTCCTCAAGAGGTTCTTGCACAGCATG GTCTTGCACAAGATGGATGCAAATTGAACGCATCAGCTATTCTCTTCACTAGTGTTAAAGAGGCTCGCACTTGTGTAAGACAACTACACCAGAAACCGCT TAAGGGAGGGACTCTTTGGGCAAGACAACTAGGTGGAGAGGGTTCCAAGGCTCAGAAGTGGAAAATCATTATCCGGAATCTCCCATTCAAGGCAAAAGTA AATGAGATAAGAGAAATGTTTTCATCAGCAGGCTTTGTCTGGGATGTCTTTGTGCCTCAGAATCCCGATACTGGGTTGCCCAAAGGTTTTGCCTTTGTGA AGTTCACGTGCAAAAAGGACGTTGAAAATGCCATTCAAAAGTTCAACGGCCAGAAGTTTGGTACCAGACCCATAGCTGTTGACTGGGCTGTCCCAAAGAA AATATACAAGAGTGGATCAATAGATGCACAGAAAGATGGGAGAAATATCAACAGCGACACTAGTGATGATGATTTGGATGACGATGATGACAGTGACAGT GATGGTGACAGTGAGACCGCCGATGTAACTGATGGCAATGATGCATCAAATGAGACCGGTTTACCGGAAAAAGTAGACTTGTCCAGCAAAGTGAACTTTG AAGAGGAAGCTAACATTGCAAGAAAAGTTCTGCAGAATTTGATTGCTTCCAGTACTAAGGGTTCTGCTGATTCTCAAATGGAAGATGGTGCTGATAAGAA GGATTCTGATGAGCCTGCAAATGTGTCTGCCGTAGAGCTTAATAATAATTCCAGTAATCCTCTTCCTGAAAAAGCTAACAAAAGTAAACCAGTAAAGGCT CAACAGGTAGAGGGAGAAGAGGATTTGCAGCGGACAGTATTCATAAATAATTTACCTTTTGATGTGGCCGCCGAAGAAGTGAAAGAACGGTTTTCTACAT TTGGCGAAGTGGTGTCCTTTTTCCCTGTCCTTCATCCAGTCACCAAGAGGCCTAGAGGGACTGGTTTTCTCAAGTTCAAGACACCAGAAGCTGCTTCCGC TGCAATTTCTGCTGTTAATGTCACATCTGGGCTGGGGATATCTTTGAAAGGAAGGCAACTAGCTGTCCTCAAGACTTTGGATAAGAAGGCCGCTCATGAT AAAGAAGTAGCTAAGACGAAAATCGAGAGTCAAGATCAGCGCAATTTGTATCTGGCAAATGAAGGACTGATTCTTGAGGGGACTCCGGCAGCAAAAGGTG TTTCAGCTGGTGATATGGCTAAGCGCAAAAGTCTGCAAGAAAAGAAGACGATTAAACTTAAATCTCCCAATTTCCACGTTTCAAGGACGAGGCTTATTAT ATATAACGTGCCTAAGTCAATGTCTGAACTTTCCCTGAAGAAACTCTGCTTAAAAGCAGTTATCTCTAGAGCAACGAAGCAGAAACCTGTTATTAAACAG GTGAAATTGCTGAAGAGATTGAAAGATGGGAAAGTTGTCAGCAATTCACGCGGAGTAGCGTTCTTGGAATTCACAGAGCATGAGCATGCTTTAGTGGCCT TGAGGGTTCTCAATAACAATCCAGAAACTTTCGGTCCTGAACATCGTCCCATTGTGGAGTTTGCACTCGACAATATCCAGACCATGAAACTGCGTGAAAC TAAGCGACAGTTTCAACATCAGCAAGGTCATGCCAATTCAAATGATGCACAAGATACCGATGCATTCGGGACAGGTCCAAATGGAGAAGAGAGGTTTGGG AAACGTAAATTTGGAGATGAGACAAGGCCGGTGAAGAATTTGGATAGAAACCAGAAAAAGTCCGAGGATGGTTCTTTCGGGCGATCCCCTTTGCAAGATC AAAGACGTTTCAAGAAACACGAGAGGAATCTGGGGAGTGAGAACAGAGAAACACAAGCACCTGATGCAGTAACATCGGACGCCACAAGAACTCGAGCAAA GAAGGGCACTAAACCCAAGCTAATAAAAGAGCGAGGCAGGCATCCTTCTTCGGCAATGAAAACTAGTGATGAGCTTAGATCAAAGCCTTCTAACAGTTCT GATTCTCAATCTCGAAACCGGAAAAGGCCGCAGAATGGAGAGGAAGGTATAACAGAAAGGAAAAGGGCAAAGAAGAACAAAGAGCATGGCGGGCAGGATC AGCTGGACATGTTGATCGAAAAATACAGATCCAAGTTCTCGAAGCCAAAGAATTCTGAAAAGGCTGGTGGTGAAAATCAACCAAAGAGACCTCTGAAGCG TTGGTTTCAATCATAG
AA sequence Show only first row Show all	>Lus10042589 pacid=23181798 polypeptide=Lus10042589 locus=Lus10042589.g ID=Lus10042589.BGIv1.0 annot-version=v1.0 MGKKGKDRKNGSKESGTDHSPSTVFVSNLPYSFTKDQLEETFSDVGPIRRCFMVTPKGSTEHRGTAFVQFAVSEDANRAIELKKDTSIEGRQIAVKHALQ RATLEQRRAKAQEVEGKPDKDATEVDGNNAKNVADSDIHEVENHTSTLPAAVDKVPHKVKKSVGKKEAKKATQVLNDLNDKVNCSEKQRVARTVIVGGLA NDVMADDVHALSKGVGAVCSVTYPLPQEVLAQHGLAQDGCKLNASAILFTSVKEARTCVRQLHQKPLKGGTLWARQLGGEGSKAQKWKIIIRNLPFKAKV NEIREMFSSAGFVWDVFVPQNPDTGLPKGFAFVKFTCKKDVENAIQKFNGQKFGTRPIAVDWAVPKKIYKSGSIDAQKDGRNINSDTSDDDLDDDDDSDS DGDSETADVTDGNDASNETGLPEKVDLSSKVNFEEEANIARKVLQNLIASSTKGSADSQMEDGADKKDSDEPANVSAVELNNNSSNPLPEKANKSKPVKA QQVEGEEDLQRTVFINNLPFDVAAEEVKERFSTFGEVVSFFPVLHPVTKRPRGTGFLKFKTPEAASAAISAVNVTSGLGISLKGRQLAVLKTLDKKAAHD KEVAKTKIESQDQRNLYLANEGLILEGTPAAKGVSAGDMAKRKSLQEKKTIKLKSPNFHVSRTRLIIYNVPKSMSELSLKKLCLKAVISRATKQKPVIKQ VKLLKRLKDGKVVSNSRGVAFLEFTEHEHALVALRVLNNNPETFGPEHRPIVEFALDNIQTMKLRETKRQFQHQQGHANSNDAQDTDAFGTGPNGEERFG KRKFGDETRPVKNLDRNQKKSEDGSFGRSPLQDQRRFKKHERNLGSENRETQAPDAVTSDATRTRAKKGTKPKLIKERGRHPSSAMKTSDELRSKPSNSS DSQSRNRKRPQNGEEGITERKRAKKNKEHGGQDQLDMLIEKYRSKFSKPKNSEKAGGENQPKRPLKRWFQS

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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
AT2G21440			RNA-binding (RRM/RBD/RNP motif...		Lus10042589 [exp]	0	1
AT4G01860			Transducin family protein / WD...		Lus10038045 [exp]	1.7	0.9275
AT1G32490		EMB2733, ESP3	ENHANCED SILENCING PHENOTYPE 3...		Lus10033690 [exp]	4.5	0.9185
AT1G75200			flavodoxin family protein / ra...		Lus10012082 [exp]	5.5	0.9130
AT1G54490		ATXRN4, XRN4, E...	ETHYLENE INSENSITIVE 5, ACC IN...		Lus10015946 [exp]	5.7	0.9221
AT5G55300		MGO1, TOP1BETA,...	TOPOISOMERASE 1, MGOUN 1, DNA ...		Lus10032573 [exp]	5.9	0.9160
AT4G30990			ARM repeat superfamily protein...		Lus10042447 [exp]	6.0	0.9215
AT5G64270			splicing factor, putative (.1)		Lus10034803 [exp]	6.6	0.9253
AT1G42440			unknown protein		Lus10013232 [exp]	6.7	0.9147
AT3G12280		RB1, RBL1, RBR1...	RETINOBLASTOMA 1, RETINOBLASTO...		Lus10008667 [exp]	7.2	0.8906
AT1G59760		AtMTR4	homolog of yeast MTR4, RNA hel...		Lus10007442 [exp]	7.3	0.9172

Compare expression of checked genes

Lus10042589 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.