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 AT1G36370 799 / 0 SHM7 serine hydroxymethyltransferase 7 (.1) AT1G22020 778 / 0 SHM6 serine hydroxymethyltransferase 6 (.1) AT4G13930 605 / 0 SHM4 serine hydroxymethyltransferase 4 (.1) AT4G13890 591 / 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) AT4G37930 503 / 9e-174 SHMT1, STM, SHM1 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) AT5G26780 483 / 7e-166 SHM2 serine hydroxymethyltransferase 2 (.1.2.3) AT4G32520 467 / 9e-160 AtSHMT3, SHM3 serine hydroxymethyltransferase 3 (.1.2)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10019942 [exp] 1160 / 0 AT1G36370 817 / 0.0 serine hydroxymethyltransferase 7 (.1) Lus10022557 [exp] 621 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10043157 [exp] 620 / 0 AT4G13930 865 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10028218 [exp] 480 / 5e-165 AT5G26780 903 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Lus10039629 [exp] 476 / 2e-163 AT4G37930 933 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10029559 [exp] 473 / 3e-162 AT4G37930 900 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10042923 [exp] 472 / 8e-162 AT4G37930 881 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10005916 [exp] 463 / 5e-158 AT4G32520 823 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Lus10022391 [exp] 462 / 9e-158 AT4G32520 828 / 0.0 serine hydroxymethyltransferase 3 (.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.001G212000 [exp] 872 / 0 AT1G36370 798 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.002G090200 [exp] 765 / 0 AT1G36370 809 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.005G170800 [exp] 755 / 0 AT1G36370 837 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.001G320400 [exp] 617 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.017G059300 [exp] 615 / 0 AT4G13930 868 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.002G109200 [exp] 488 / 5e-168 AT5G26780 904 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Potri.006G232300 [exp] 482 / 2e-165 AT4G32520 869 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Potri.008G002900 [exp] 476 / 4e-163 AT4G37930 933 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Potri.010G254700 [exp] 473 / 3e-162 AT4G37930 918 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.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	>Lus10015471 pacid=23173581 polypeptide=Lus10015471 locus=Lus10015471.g ID=Lus10015471.BGIv1.0 annot-version=v1.0 ATGGAATCCAACTTGTCCCTCGGATTGGTTTCCACAGCCACCCCCGTTGCTTCCCCTGCTCATCGCTCTCAGATTTCCGATGATTCCATCTCTTTCCTCC GTGAAACATCCTCTTCCTCCGCCTCTGCCGCCCACAACCTCCCTCTCCGCCTGCTCGAGTCCATTACCGACCATCATTCCCGCCCCAATCATCACAAGAA CGGCTCCATAGAGCTTAATCGCGAGCCCGGTGACGAGGAGGACGAGCGCGAGTTCCGGATTCTAGGTCATTCCATGTGCTTGAAACGCCGTCGCTCCGAT TGTGAGATTCAGTCCTCCGCCAAGAGGACATCTGCCGCCAATGACTCCGACGCCGAGGAGAAGCGGAATTCTGCCAAGGCTTGGGGTAACCAGCCGATCA GTGAGGCGGATCCGGAAATTTTCGAGATCATTGGTAAGGAGAAGGAGAGGCAAGTGAAAGGAATTGAGCTGATTGCATCCGAGAATTTTGTTTGTAGAGC TGTGATGGAAGCACTGGGGAGTCATTTGACCAACAAATACTCTGAAGGAATGCCTGGGGCACGTTACTACTGTGGGAATCAATACATTGACGATATTGAA ACCCTATGTTGCAAGCGGGCGCTAGATGCTTTCGGACTGGATCCGGAGAATTGGGGGGTTAATGTCCAGCCCTACTCTTGCACTTCTGCTAATTTCGCTG TATATACCGGATTGTTGTTGCCTGGAGATAGGATTATGGGGCTTGACACCCCTTCTGGAGGGAATACCAGCCATGGGTGCTATATGCCGAGTGGTAGGAA AGTTTCTGCAGCTTCGATTTTCTTTGAGAGTTTGTCGTATAAGGTGAACCCACATACTGGGTACATTGATTTCGATAAGCTGGAAGAGAGAGCACTTGAT TTCAGGCCCAAGATTCTTATCTGTGGTGGCAGCTCTTATCCGAGGGAGTGGGATTATGCGAGGTTTAGACAGATTGCGGATAAGTGTGGCTCTGTTCTTC TGTGTGACATGGCTCAAATTAGTGGTCTTGTTGCTTCAAAGGAGTGTGTCAATCCATTTGACTACTGTGACATTGTTACTTCAACAACTCACAAGAGTCT GAGGGGACCAAGGGGAGGTATAATTTTCTACAGGAAAGGTACGAAGCCAAGGAAAAGAGGGATGCTCTTAAGTCAGGGCAACGAAAATGAGCAGTATGAT TTTGAGGAAAAGATAAACTTCGCTGTGTTTCCATCGCTGCAAGGTGGACCTCACAATAACCATATTGCTGCTCTTGCAATCGCCTTGAAGCAAGCTGTTA CCCCCGAGTACAAGGCATATATGCATCAGGTGAAGCGAAATGCACAAGCTTTAGCCAATGCCTTGTTGAGAAGAAGATGTCGGCTGGTAACTGGAGGCAC AGACAACCATTTGTTACTTTGGGATCTGAGGCCACTGGGACTAACAGGTAAAACATATGAGAAGGTCTGCGAGTTGTGTCATATTACTGTTAACAAAATT GCTATCTTCGGGGATAACGGCACCATTACTCCTGGAGGTGTAAGGATTGGTACTCCTGCGATGACATCGAGAGGTTGCCTGGAATCTGATTTTGAGGTGA TGGCTGACTTTCTATTGAGGGTTGCACAGATTGCAAGTATGCTACAGCGGGAACATGGGAAGTCTCCCAAGGCTTTCCTGGAGGCTCTTCAGAGCAGCAA GGACCTTGCAGAGGTTCGGAATCAAGTGGAAAGCTTTGCAACTCAGTTTTCGCTGCCGGGGGTTGACGTGTGA
AA sequence Show only first row Show all	>Lus10015471 pacid=23173581 polypeptide=Lus10015471 locus=Lus10015471.g ID=Lus10015471.BGIv1.0 annot-version=v1.0 MESNLSLGLVSTATPVASPAHRSQISDDSISFLRETSSSSASAAHNLPLRLLESITDHHSRPNHHKNGSIELNREPGDEEDEREFRILGHSMCLKRRRSD CEIQSSAKRTSAANDSDAEEKRNSAKAWGNQPISEADPEIFEIIGKEKERQVKGIELIASENFVCRAVMEALGSHLTNKYSEGMPGARYYCGNQYIDDIE TLCCKRALDAFGLDPENWGVNVQPYSCTSANFAVYTGLLLPGDRIMGLDTPSGGNTSHGCYMPSGRKVSAASIFFESLSYKVNPHTGYIDFDKLEERALD FRPKILICGGSSYPREWDYARFRQIADKCGSVLLCDMAQISGLVASKECVNPFDYCDIVTSTTHKSLRGPRGGIIFYRKGTKPRKRGMLLSQGNENEQYD FEEKINFAVFPSLQGGPHNNHIAALAIALKQAVTPEYKAYMHQVKRNAQALANALLRRRCRLVTGGTDNHLLLWDLRPLGLTGKTYEKVCELCHITVNKI AIFGDNGTITPGGVRIGTPAMTSRGCLESDFEVMADFLLRVAQIASMLQREHGKSPKAFLEALQSSKDLAEVRNQVESFATQFSLPGVDV

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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
AT1G36370		SHM7	serine hydroxymethyltransferas...		Lus10015471 [exp]	0	1
AT1G36370		SHM7	serine hydroxymethyltransferas...		Lus10019942 [exp]	1.7	0.8541
AT4G37680		HHP4	heptahelical protein 4 (.1.2)		Lus10025206 [exp]	2.0	0.8442
AT5G11090			serine-rich protein-related (....		Lus10001946 [exp]	3.2	0.8537
AT1G04990	C3HZnF		Zinc finger C-x8-C-x5-C-x3-H t...		Lus10035330 [exp]	4.5	0.8257
AT5G58950			Protein kinase superfamily pro...		Lus10015314 [exp]	4.6	0.8305
AT2G06050		AtOPR3, DDE1, O...	DELAYED DEHISCENCE 1, oxophyto...		Lus10000966 [exp]	5.0	0.8392
AT2G30360		PKS5, CIPK11, S...	SNF1-RELATED PROTEIN KINASE 3....		Lus10009925 [exp]	5.2	0.8528
AT2G47070	SBP	SPL1	squamosa promoter binding prot...		Lus10038043 [exp]	7.3	0.7841
AT1G02130		ARA5, AtRABD2a,...	ARABIDOPSIS THALIANA RAB D2A, ...		Lus10037608 [exp]	7.4	0.8222
AT1G26160			Metal-dependent phosphohydrola...		Lus10017897 [exp]	8.0	0.8053

Compare expression of checked genes

Lus10015471 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.