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 AT4G00830 553 / 0 LIF2 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) AT3G52660 374 / 1e-125 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) AT5G28390 140 / 3e-39 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT2G44710 107 / 2e-24 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G22760 89 / 1e-18 PAB3 poly(A) binding protein 3 (.1) AT1G71770 88 / 3e-18 PAB5 poly(A)-binding protein 5 (.1), poly(A)-binding protein 5 (.2) AT2G23350 83 / 1e-16 PABP4, PAB4 poly(A) binding protein 4 (.1) AT1G49760 82 / 2e-16 PABP8, PAB8 poly(A) binding protein 8 (.1), poly(A) binding protein 8 (.2) AT3G16380 81 / 5e-16 PAB6 poly(A) binding protein 6 (.1) AT5G54900 79 / 1e-15 ATRBP45A RNA-binding protein 45A (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10030207 [exp] 761 / 0 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) Lus10034195 [exp] 394 / 8e-134 AT3G52660 444 / 7e-154 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10043390 [exp] 392 / 3e-133 AT3G52660 444 / 7e-154 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10021351 [exp] 384 / 1e-129 AT3G52660 478 / 3e-166 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10017026 [exp] 243 / 2e-75 AT3G52660 320 / 2e-105 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Lus10033990 [exp] 132 / 2e-32 AT2G44710 301 / 2e-88 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10012785 [exp] 125 / 1e-30 AT2G44710 305 / 4e-92 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10028162 [exp] 119 / 2e-28 AT2G44710 675 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10010042 [exp] 87 / 7e-18 AT4G34110 865 / 0.0 ARABIDOPSIS POLY\(A\) BINDING 2, poly(A) binding protein 2 (.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.014G104500 [exp] 590 / 0 AT4G00830 574 / 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) Potri.002G178200 [exp] 566 / 0 AT4G00830 558 / 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) Potri.006G212400 [exp] 409 / 3e-139 AT3G52660 473 / 1e-164 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.016G079200 [exp] 404 / 2e-137 AT3G52660 449 / 4e-155 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.009G163400 [exp] 397 / 2e-134 AT3G52660 400 / 9e-136 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.004G201900 [exp] 394 / 3e-133 AT3G52660 422 / 2e-144 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2) Potri.005G116400 [exp] 141 / 1e-35 AT2G44710 325 / 1e-98 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.007G014100 [exp] 134 / 2e-33 AT2G44710 322 / 8e-98 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.002G139700 [exp] 127 / 3e-31 AT2G44710 585 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.014G051500 [exp] 122 / 2e-29 AT2G44710 627 / 0.0 RNA-binding (RRM/RBD/RNP motifs) family 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	>Lus10002689 pacid=23159068 polypeptide=Lus10002689 locus=Lus10002689.g ID=Lus10002689.BGIv1.0 annot-version=v1.0 ATGGCAGAAGGTGGAGAAGTCGACGAGCGAGTGGATTTCGAAGAAGACAACTACATGGAAGATGACGATGTTGAAGAGCAAGACAGAAATGTCGTCGAAG ATGACGACGATGACGATTCGAATCCGAAAGAGGAAGAACAGTCGCCACCGCAGGATGATGGGGATGATGAGGAAGTAGATGTCGAATTAGATGTCGAAGC TGATGAACCTGACGAAGAGAAGCAGCCAGGGGGCGATTCTCCGATCAGTGACGAGGAAAGGGAGAAGCACGCTCAACTCCTCGCTCTCCCTCCCCACGGA TCGGAGGTTTTCATCGGAGGCCTTCCTAAGGATGTTGTAGAAGATGATTTGACTGAGCTTTGTGAAGCAGTTGGTGAACCTCTTGAGATAAGGTTGGTGA AGGATAAAGATACTGGCGACAGCAAAGGTTTCGCCTTTGTATCTTTCAACTCAAAGGAAGTTGCTCAGAATGTTATTGATGAGTTGCATAACAAACAATT CAGGGGTAAAACATTGAGATGCTCTCCATCTGAAACTAAGAACAGGTTGTTTGTTGGAAATATTCCCAAGAACTTAACAGATGATCAGTTTAGGAAAGTA GTCGAGGATGTCGGCCCAGGTGCAGAAGTCATTGAACTCATTAAGGATCCTGTGAATCCTAGCCGTAATCGTGGATTCGCGTTTATACTGTACTACAACA ATGCATGCGCTGACTATTCGAGGCAGAAGATGCTGAGCTCGAGTTTCAAACTTGATGGAAATACCCCTTCCATCAGCTGGGCTGATCCAAAGGCCAGCCC TGATCATTCTGGTGCTTATGCCCAGGTTAAGGCTCTGTATGTCAAGAACATTCCGGAAAACACAAGCACTGAGAAACTGAAGGAGTTGTTTATACACCAC GGGGAGGTAACTAAAGTTGTTATGCCGCCTGGGAAAGCTGGGAAACGAGATTTCGGATTCATCCACTTTGCTGACAGGGCTAGCGCGTTGAAAGCTGTCC GAGATACAGAGAAGTACGAAATCGATGGCCAGGCGTTGGAGGTTGTCCTGGCTAAGCCGCAGACCGATAAAAGATCGGACGGAGCGTATCTCTATGCTGG TGCCGGTCTTCCTCCACATGTTGCATCTCCTTCTTATGGTGCATTCGCTCCGAATCCTTATATGGGTGCCGGATTTGGTGCAGCCTCGAGTTTTCAGCAG CCGATGATATATGGTCGAGGTCCGATGCCTTCGGGGATGCAGATGGTGCCTATGGTGCTACCGGATGGTCGAGTCGGCTATGTTCTTCAGCAGCCGGGAG TGCAACTGCCACAGTCGCGCCCACTGAGGAGAGGTGATCGGGGGAATGGCATGAATGGCTCTGGCCGGGGAGGAAGCAACGGAGATGATGGCAACCGTGG CCGAAGATACCGGCCATACTAG
AA sequence Show only first row Show all	>Lus10002689 pacid=23159068 polypeptide=Lus10002689 locus=Lus10002689.g ID=Lus10002689.BGIv1.0 annot-version=v1.0 MAEGGEVDERVDFEEDNYMEDDDVEEQDRNVVEDDDDDDSNPKEEEQSPPQDDGDDEEVDVELDVEADEPDEEKQPGGDSPISDEEREKHAQLLALPPHG SEVFIGGLPKDVVEDDLTELCEAVGEPLEIRLVKDKDTGDSKGFAFVSFNSKEVAQNVIDELHNKQFRGKTLRCSPSETKNRLFVGNIPKNLTDDQFRKV VEDVGPGAEVIELIKDPVNPSRNRGFAFILYYNNACADYSRQKMLSSSFKLDGNTPSISWADPKASPDHSGAYAQVKALYVKNIPENTSTEKLKELFIHH GEVTKVVMPPGKAGKRDFGFIHFADRASALKAVRDTEKYEIDGQALEVVLAKPQTDKRSDGAYLYAGAGLPPHVASPSYGAFAPNPYMGAGFGAASSFQQ PMIYGRGPMPSGMQMVPMVLPDGRVGYVLQQPGVQLPQSRPLRRGDRGNGMNGSGRGGSNGDDGNRGRRYRPY

---

DESeq2's median of ratios [FLAX]

Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

---

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
AT4G00830		LIF2	LHP1-Interacting Factor 2, RNA...		Lus10002689 [exp]	0	1
AT3G44680		HDA09, HDA9	histone deacetylase 9 (.1)		Lus10020570 [exp]	1.4	0.9362
AT3G03740		ATBPM4	BTB-POZ and MATH domain 4 (.1)		Lus10003365 [exp]	1.4	0.9229
AT5G61330			rRNA processing protein-relate...		Lus10020496 [exp]	5.0	0.9172
AT4G08310			unknown protein		Lus10003736 [exp]	5.3	0.9042
AT5G53070			Ribosomal protein L9/RNase H1 ...		Lus10022383 [exp]	6.5	0.9116
AT4G17020			transcription factor-related (...		Lus10012849 [exp]	6.5	0.9201
AT5G13490		AAC2	ADP/ATP carrier 2 (.1.2)		Lus10018612 [exp]	7.4	0.9071
AT3G27530		MAG4, GC6	MAIGO 4, golgin candidate 6 (....		Lus10032089 [exp]	8.8	0.9143
AT4G27870			Vacuolar iron transporter (VIT...		Lus10011838 [exp]	14.4	0.8970
AT3G54010		DEI1, PAS1	PASTICCINO 1, FKBP-type peptid...		Lus10021502 [exp]	14.7	0.9094

Compare expression of checked genes

Lus10002689 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.