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 AT4G13930 865 / 0 SHM4 serine hydroxymethyltransferase 4 (.1) AT4G13890 784 / 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) AT1G36370 638 / 0 SHM7 serine hydroxymethyltransferase 7 (.1) AT1G22020 629 / 0 SHM6 serine hydroxymethyltransferase 6 (.1) AT4G32520 571 / 0 AtSHMT3, SHM3 serine hydroxymethyltransferase 3 (.1.2) AT4G37930 568 / 0 SHMT1, STM, SHM1 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) AT5G26780 555 / 0 SHM2 serine hydroxymethyltransferase 2 (.1.2.3)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10022557 [exp] 882 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10032592 [exp] 637 / 0 AT4G13930 561 / 0.0 serine hydroxymethyltransferase 4 (.1) Lus10015471 [exp] 635 / 0 AT1G36370 819 / 0.0 serine hydroxymethyltransferase 7 (.1) Lus10019942 [exp] 635 / 0 AT1G36370 817 / 0.0 serine hydroxymethyltransferase 7 (.1) Lus10028218 [exp] 572 / 0 AT5G26780 903 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Lus10042923 [exp] 567 / 0 AT4G37930 881 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Lus10022391 [exp] 556 / 0 AT4G32520 828 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Lus10005916 [exp] 553 / 0 AT4G32520 823 / 0.0 serine hydroxymethyltransferase 3 (.1.2) Lus10029559 [exp] 548 / 0 AT4G37930 900 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.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.001G320400 [exp] 887 / 0 AT4G13930 874 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.017G059300 [exp] 885 / 0 AT4G13930 868 / 0.0 serine hydroxymethyltransferase 4 (.1) Potri.005G170800 [exp] 649 / 0 AT1G36370 837 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.002G090200 [exp] 646 / 0 AT1G36370 809 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.001G212000 [exp] 639 / 0 AT1G36370 798 / 0.0 serine hydroxymethyltransferase 7 (.1) Potri.002G109200 [exp] 567 / 0 AT5G26780 904 / 0.0 serine hydroxymethyltransferase 2 (.1.2.3) Potri.010G254700 [exp] 558 / 0 AT4G37930 918 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Potri.008G002900 [exp] 552 / 0 AT4G37930 933 / 0.0 SERINE HYDROXYMETHYLTRANSFERASE 1, serine transhydroxymethyltransferase 1 (.1) Potri.006G232300 [exp] 552 / 0 AT4G32520 869 / 0.0 serine hydroxymethyltransferase 3 (.1.2)
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	>Lus10043157 pacid=23168210 polypeptide=Lus10043157 locus=Lus10043157.g ID=Lus10043157.BGIv1.0 annot-version=v1.0 ATGGATCCAGTCAAGGTATGGGGAAACACTCCTTTGCAAACCGTGGACCCTGAGATCCACGACCTCATCGAGAAGGAGAAGCGCCGTCAATGCCGCGGGA TCGAGCTCATCGCCTCCGAGAACTTCACCTCCTTCGCCGTCATCGAAGCCCTCGGCAGCGCCCTCACCAACAAGTACTCCGAGGGCATGCCCGGAAATCG CTACTACGGCGGCAACGAGTACATCGATCAGATCGAGAACCTCTGCGTATCCCGCGCCTTGACCGCTTTCCACTTGGACGACACCAAGTGGGGCGTCAAT GTCCAGCCTTACTCCGGCTCCCCTGCCAATTTCGCCGCCTACACCGCCATTCTCAAGCCCCATGATCGTATCATGGGATTGGATCTCCCATCTGGTGGTC ATCTGACTCATGGATACTACACCTCCAGCGGGAAGAAGATCTCCGCAACTTCCATTTACTTCGAGAGCTTGCCTTACAAGGTGAATTCCAGCACTGGCTA CATCGACTACGATAAGCTGGAAGAGAAGGCTTTGGATTTCAGGCCACGGTTGATCATCTGTGGTGGCAGTGCTTACCCTAGGGACTGGGATTACGCTAGA TTTAGGGCTATTGCTGATAAATGCGGTGCTCTTTTGCTCTGCGATATGGCTCACATTAGCGGCCTAGTTGCTGCTCAGGAAGCTGCCAACCCCTTTGAGT TCTGTGACATTGTCACAACCACCACCCACAAGAGTTTGAGGGGTCCCAGAGCTGGTATGATCTTCTACCGCAAGGGACCTAAGCCAGCCAACAAGAAGGG TCAGCCTCAAGGCAACTATGAATTCGAGGACAACATCAACTTCTCTGTCTTCCCTGCCCTCCAGGGAGGCCCCCATAATCACCAGATCGGTGCCCTTGCT GTTGCATTGAAGCAGGCCGCGACCCCTGCATTCAAGGCCTATGCCAAGCAAGTGAAGGCCAATGCTGTTGCTGTTGGGAACTATTTGATGAGCAAAGGCT ACACCTTGGTCACTGGAGGAACTGAGAACCACCTTGTTCTGTGGGATCTGAGACCTCTTGGGTTGACTGGTAACAAGGTCGAGAAGGTTTGCGATCTCTG TAACATCACTGTGAACAAGAATGCAGTGTTCGGAGACAGCAGTGCATTGTCCCCAGGAGGCGTGAGAGTTGGGGCACCTGCCATGACTTCAAGAGGGTTG TTGGAGAAAGACTTTGAGCAAATCGGAGAGTTCCTCCACCGTGCTGTGGCCTTAACACTGAGCATCCAGAAGGAATATGGGAAGTTACTGAAGGACTTCA ACAAGGGCCTGGAGAACAACAAAGAGATCGAAGCATTGAAAGCTGATGTTGAGAAATTTGCAGGTTCATTTGATATGCCTGGTTTCCTCATGTCTGAGAT GAAGTACCAGGAGTAA
AA sequence Show only first row Show all	>Lus10043157 pacid=23168210 polypeptide=Lus10043157 locus=Lus10043157.g ID=Lus10043157.BGIv1.0 annot-version=v1.0 MDPVKVWGNTPLQTVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRYYGGNEYIDQIENLCVSRALTAFHLDDTKWGVN VQPYSGSPANFAAYTAILKPHDRIMGLDLPSGGHLTHGYYTSSGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPRLIICGGSAYPRDWDYAR FRAIADKCGALLLCDMAHISGLVAAQEAANPFEFCDIVTTTTHKSLRGPRAGMIFYRKGPKPANKKGQPQGNYEFEDNINFSVFPALQGGPHNHQIGALA VALKQAATPAFKAYAKQVKANAVAVGNYLMSKGYTLVTGGTENHLVLWDLRPLGLTGNKVEKVCDLCNITVNKNAVFGDSSALSPGGVRVGAPAMTSRGL LEKDFEQIGEFLHRAVALTLSIQKEYGKLLKDFNKGLENNKEIEALKADVEKFAGSFDMPGFLMSEMKYQE

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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
AT4G13930		SHM4	serine hydroxymethyltransferas...		Lus10043157 [exp]	0	1
AT3G17390		MAT4, SAMS3, MT...	S-ADENOSYLMETHIONINE SYNTHETAS...		Lus10004522 [exp]	1.4	0.9714
AT5G03300		ADK2	adenosine kinase 2 (.1)		Lus10023532 [exp]	2.4	0.9712
AT5G03300		ADK2	adenosine kinase 2 (.1)		Lus10040417 [exp]	2.4	0.9709
AT3G59970		MTHFR1	methylenetetrahydrofolate redu...		Lus10025610 [exp]	2.8	0.9688
AT3G52020		SCPL39	serine carboxypeptidase-like 3...		Lus10039582 [exp]	3.7	0.9459
AT5G17920		ATCIMS, ATMETS,...	methionine synthesis 1, COBALA...		Lus10020273 [exp]	3.9	0.9609
AT1G13680			PLC-like phosphodiesterases su...		Lus10012600 [exp]	9.2	0.9261
AT2G37040		PAL1, ATPAL1	PHE ammonia lyase 1 (.1)		Lus10023531 [exp]	10.6	0.9434
AT5G52060		ATBAG1	BCL-2-associated athanogene 1 ...		Lus10015004 [exp]	10.8	0.9089
AT5G63400		ADK1	adenylate kinase 1 (.1.2)		Lus10022453 [exp]	10.8	0.9400

Compare expression of checked genes

Lus10043157 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.