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 AT4G32520 816 / 0 AtSHMT3, SHM3 serine hydroxymethyltransferase 3 (.1.2) AT4G37930 579 / 0 SHMT1, STM, SHM1 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) AT5G26780 575 / 0 SHM2 serine hydroxymethyltransferase 2 (.1.2.3) AT4G13930 548 / 0 SHM4 serine hydroxymethyltransferase 4 (.1) AT4G13890 534 / 0 SHM5, EDA36, EDA37 SERINE HYDROXYMETHYLTRANSFERASE 5, EMBRYO SAC DEVELOPMENT ARREST 36, EMBRYO SAC DEVELOPMENT ARREST 37, Pyridoxal phosphate (PLP)-dependent transferases superfamily protein (.1) AT1G22020 493 / 1e-169 SHM6 serine hydroxymethyltransferase 6 (.1) AT1G36370 479 / 2e-164 SHM7 serine hydroxymethyltransferase 7 (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10005916 [exp] 1021 / 0 AT4G32520 823 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Lus10039629 [exp] 578 / 0 AT4G37930 933 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10029559 [exp] 576 / 0 AT4G37930 900 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10028218 [exp] 563 / 0 AT5G26780 903 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Lus10042923 [exp] 561 / 0 AT4G37930 881 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10043157 [exp] 555 / 0 AT4G13930 865 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10022557 [exp] 540 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10019942 [exp] 478 / 4e-164 AT1G36370 817 / 0.0 serine hydroxymethyltransferase 7 (.1) Lus10015471 [exp] 476 / 3e-163 AT1G36370 819 / 0.0 serine hydroxymethyltransferase 7 (.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.006G232300 [exp] 890 / 0 AT4G32520 869 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Potri.010G254700 [exp] 577 / 0 AT4G37930 918 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Potri.002G109200 [exp] 576 / 0 AT5G26780 904 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Potri.008G002900 [exp] 572 / 0 AT4G37930 933 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Potri.017G059300 [exp] 556 / 0 AT4G13930 868 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.001G320400 [exp] 551 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.005G170800 [exp] 501 / 2e-173 AT1G36370 837 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.002G090200 [exp] 498 / 2e-172 AT1G36370 809 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.001G212000 [exp] 476 / 2e-163 AT1G36370 798 / 0.0 serine hydroxymethyltransferase 7 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0061 [flax] [poplar] PLP_aminotran PF00464 [flax] [poplar] SHMT Serine hydroxymethyltransferase
Representative CDS sequence Show only first row Show all	>Lus10022391 pacid=23171748 polypeptide=Lus10022391 locus=Lus10022391.g ID=Lus10022391.BGIv1.0 annot-version=v1.0 ATGCATACTTGCGCCGGAACTGCATTCACTGGTTCTCTACAACAGCCCCTTTGGAGCAATGGAACAAGGCTCGTTCCCAAAAATTCTGGCTTTGTTGTGT TCCCAAACCAGGTTAAGCTCAAATCCATGAAACCCTGCAAATCTTCAAACCTTGAAGGCAGCTTGGTGACTGGCAGGCCTCCCTCTTCCGTTTCTGTTCC AATTCCAGAAATTGAAGGAGGTGATAAGAGTGGGTTCCAGGACCATGCCCTCAGTGATGCTGATCCAGCTGTTCATGAGATTATCAGTAAGGAGAAAGAT AGGCAATTCAAAAGCCTTGCGCTCATTGCCTCCGAGAATTTCACTTCTCGGGCGGTTATGGAAGCTGTTGGCTCATGTCTGACCAACAAGTACTCTGAAG GACTGCCTGGTAAAAGATACTACGGTGGAAATGAATTTATTGATGAGCTCGAAACACTTTGTCAAGAAAGAGCTTTAGCTGCTTTTCACTTGGATGGAAA CAAGTGGGGTGTTAATGTACAGCCATTGTCTGGATCCCCTGCTAATTTTGAGGTCTACACTGCAATTCTTAAGCCACATGATCGAATCATGGGTTTGGAT TTGCCTCATGGAGGTCACTTGACTCATGGGTTCATGACTCGAACGAGGAGGGTCTCTGCCACTTCAGTATATTTTGAGTCCATGCCATACCGGCTTGATG AGTCTACAGGTCTGATTGATTATGATAAGCTTGAAGAGAATGCTCAACTGTTTCGACCTAAACTTATTATTGTTGGAGCTAGTGCTTATCCCCGAGATTT TGATTATCCTCGCATGAGGAAAATAGCGGATTCTATTGGTGCATTTCTCATGATGGATATGGCTCACATAAGTGGACTAGTTGCTGCTTCTGTCGTTGCT GATCCTTTTGAATACTGTGATATTGTAACGACAACGACACACAAGTCTCTACGAGGTCCAAGAGGTGGCATGATTTTCTTTAGAAGAGATCCTGTTCTTG GTGTTCACTTGGAAACGGCCATCAACAATTCTGTATTCCCAGGGTTGCAGGGAGGTCCCCATAACCACACGATCGGAGCACTAGCTGTTTGCTTGAAGCA TGCTCAATCCCCTACATTTAAAACCTATCAGAAGCAGGTCATTTCTAATTGTAGGGCTCTTGCACAACGACTGGGTGAATTGGGATATAAGCTTGTTTCT GGTGGCAGTGACAACCACCTTGTTCTTGTAGATCTCAGGCCAACGGGAGTTGATGGAGCTCGGGTGGAAAAGATCCTTGACATGGCTTCTATTACACTCA ACAAGAACTCAGTGCCTGGTGATAAGAGTGCGCTGATGCCGGGTGGAATTCGTATTGGATCGCCTGCCATGACTACCAGGGGATTCAAGGAGAGGGAATT CGTGGCAACGGCTGACTTGATTCACGAGGGCGTGCAGATAACACTGGAAGCTAAATCACTAGCATCAGGGTCAAAGCTGCAGGACTTCTTGAAGTTTGTT TCGTCGCCAGAGTTCCCGCTGAAAGATAAGTTGTCAGATCTCCAGAAACGTGTTGAAGCGCTTACAACCCAGTTTCCTATTCCCGGGATATGA
AA sequence Show only first row Show all	>Lus10022391 pacid=23171748 polypeptide=Lus10022391 locus=Lus10022391.g ID=Lus10022391.BGIv1.0 annot-version=v1.0 MHTCAGTAFTGSLQQPLWSNGTRLVPKNSGFVVFPNQVKLKSMKPCKSSNLEGSLVTGRPPSSVSVPIPEIEGGDKSGFQDHALSDADPAVHEIISKEKD RQFKSLALIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEFIDELETLCQERALAAFHLDGNKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLD LPHGGHLTHGFMTRTRRVSATSVYFESMPYRLDESTGLIDYDKLEENAQLFRPKLIIVGASAYPRDFDYPRMRKIADSIGAFLMMDMAHISGLVAASVVA DPFEYCDIVTTTTHKSLRGPRGGMIFFRRDPVLGVHLETAINNSVFPGLQGGPHNHTIGALAVCLKHAQSPTFKTYQKQVISNCRALAQRLGELGYKLVS GGSDNHLVLVDLRPTGVDGARVEKILDMASITLNKNSVPGDKSALMPGGIRIGSPAMTTRGFKEREFVATADLIHEGVQITLEAKSLASGSKLQDFLKFV SSPEFPLKDKLSDLQKRVEALTTQFPIPGI

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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
AT4G32520		AtSHMT3, SHM3	serine hydroxymethyltransferas...		Lus10022391 [exp]	0	1
AT3G16260		TRZ4	tRNAse Z4 (.1)		Lus10038290 [exp]	5.5	0.8248
AT1G72210	bHLH	bHLH096	basic helix-loop-helix (bHLH) ...		Lus10009475 [exp]	8.3	0.7861
AT5G26680			5'-3' exonuclease family prote...		Lus10000270 [exp]	8.8	0.7995
AT2G17250		EMB2762	EMBRYO DEFECTIVE 2762, CCAAT-b...		Lus10001388 [exp]	9.5	0.7729
					Lus10026259 [exp]	11.0	0.7338
AT1G26170			ARM repeat superfamily protein...		Lus10000328 [exp]	12.0	0.7801
AT3G12810		CHR13, SRCAP, P...	PHOTOPERIOD-INDEPENDENT EARLY ...		Lus10007172 [exp]	17.4	0.7072
AT3G55510		RBL	REBELOTE, Noc2p family (.1)		Lus10041417 [exp]	20.2	0.7439
AT5G57120			unknown protein		Lus10001434 [exp]	28.8	0.7512
AT1G13630			Tetratricopeptide repeat (TPR)...		Lus10019200 [exp]	30.3	0.6337

Compare expression of checked genes

Lus10022391 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.