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 AT4G36020 92 / 2e-22 CSDP1 cold shock domain protein 1 (.1) AT2G21060 87 / 2e-21 ATCSP4, ATGRP2B COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) AT2G17870 88 / 8e-21 ATCSP3 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) AT4G38680 76 / 3e-17 ATCSP2, CSDP2, GRP2 COLD SHOCK DOMAIN PROTEIN 2, ARABIDOPSIS THALIANA COLD SHOCK PROTEIN 2, glycine rich protein 2 (.1) AT3G43590 45 / 9e-06 zinc knuckle (CCHC-type) family protein (.1) AT3G42860 45 / 1e-05 zinc knuckle (CCHC-type) family protein (.1) AT2G37340 41 / 0.0002 RSZ33, ATRSZ33, RS2Z33, AT-RS2Z33 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) AT3G53500 39 / 0.0009 RSZ32, RS2Z32, At-RS2Z arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10025623 [exp] 116 / 3e-33 ND 81 / 8e-20 Lus10025058 [exp] 92 / 2e-24 AT2G21060 112 / 6e-33 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10027839 [exp] 93 / 6e-24 AT2G21060 110 / 6e-31 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10005066 [exp] 93 / 6e-24 AT2G17870 122 / 1e-35 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Lus10028449 [exp] 82 / 6e-19 AT4G36020 158 / 3e-47 cold shock domain protein 1 (.1) Lus10041902 [exp] 82 / 6e-19 AT4G36020 159 / 2e-47 cold shock domain protein 1 (.1) Lus10034487 [exp] 74 / 1e-16 AT2G21060 110 / 7e-31 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10015039 [exp] 40 / 0.0006 AT3G53500 256 / 8e-85 arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2) Lus10003987 [exp] 40 / 0.0007 AT3G53500 255 / 2e-84 arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.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.005G174300 [exp] 124 / 1e-35 AT2G17870 92 / 1e-22 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.002G086900 [exp] 118 / 1e-33 AT2G17870 89 / 2e-21 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.004G172600 [exp] 101 / 8e-27 AT2G21060 102 / 3e-27 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Potri.009G132000 [exp] 97 / 3e-25 AT2G21060 103 / 1e-27 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Potri.005G112800 [exp] 66 / 4e-13 AT2G17870 86 / 1e-19 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.007G057100 [exp] 64 / 1e-12 AT4G36020 127 / 3e-35 cold shock domain protein 1 (.1) Potri.009G155500 [exp] 42 / 0.0002 AT3G43590 286 / 9e-89 zinc knuckle (CCHC-type) family protein (.1) Potri.006G215200 [exp] 40 / 0.0003 AT2G37340 266 / 6e-89 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) Potri.016G081700 [exp] 40 / 0.0003 AT2G37340 268 / 2e-89 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) Potri.001G318100 [exp] 40 / 0.0004 AT3G42860 211 / 8e-66 zinc knuckle (CCHC-type) family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0021 [flax] [poplar] OB PF00313 [flax] [poplar] CSD 'Cold-shock' DNA-binding domain CL0511 [flax] [poplar] Retroviral_zf PF00098 [flax] [poplar] zf-CCHC Zinc knuckle
Representative CDS sequence Show only first row Show all	>Lus10028073 pacid=23181237 polypeptide=Lus10028073 locus=Lus10028073.g ID=Lus10028073.BGIv1.0 annot-version=v1.0 ATGGCGGCAGAAGAAGCGAGCAAAAGATCCACCGGCACAGTCAAGTGGTTCAGCGCCAGGAAAGGATTCGGATTCGTCGCCCCCAACGACGGCAGCGAGG ATCTCTTCGTCCACCAGACCTCCATCCGTTCCGAAGGCTTTCGCACCCTCTCCGACGGCCAGCCGGTCGAGTTCTCCGTCGATTACGCCGAGGACGGCCG ATCCAAGGCCGTCGATGTCGCCGCCGTCTCCAGATCTCGCGGCGGCGGAGGCAGAGGATTCCGCGGCGGAGGTGGAGGCAGAGGAGGCGGTTACGGAAGA GGTTCTAGAGGCGGCGGCGGACGGGGTGATGGCGGTGGAGGTTCCGGTGGATACAATTACGATGGCGGATACGGTGGCGGTGGTGGAGGTGGAGGTGGGG CGTGTTATAGCTGTGGCCGAGTCGGTCATTTAGCCAGGGACTGTAATAACCAAGGCGGAGGCGGTCGAGGAAGTCGGAGATACGGTGGCGGCGGAGGTGG GGGTGTACGCTCCGAGTGTTACAATTGTGGAGAGGAAGGGCATTTCGCGAGAGATTGCGTTAACGTGGATAGAAAATGA
AA sequence Show only first row Show all	>Lus10028073 pacid=23181237 polypeptide=Lus10028073 locus=Lus10028073.g ID=Lus10028073.BGIv1.0 annot-version=v1.0 MAAEEASKRSTGTVKWFSARKGFGFVAPNDGSEDLFVHQTSIRSEGFRTLSDGQPVEFSVDYAEDGRSKAVDVAAVSRSRGGGGRGFRGGGGGRGGGYGR GSRGGGGRGDGGGGSGGYNYDGGYGGGGGGGGGACYSCGRVGHLARDCNNQGGGGRGSRRYGGGGGGGVRSECYNCGEEGHFARDCVNVDRK

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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
AT4G36020		CSDP1	cold shock domain protein 1 (....		Lus10028073 [exp]	0	1
AT3G48420			Haloacid dehalogenase-like hyd...		Lus10016820 [exp]	1.4	0.9694
AT1G52240		PIRF1, ATROPGEF...	phytochrome interacting RopGEF...		Lus10021496 [exp]	2.4	0.9520
AT3G48420			Haloacid dehalogenase-like hyd...		Lus10033034 [exp]	2.4	0.9591
AT1G64380	AP2_ERF		Integrase-type DNA-binding sup...		Lus10003889 [exp]	4.6	0.9248
AT1G32220			NAD(P)-binding Rossmann-fold s...		Lus10000057 [exp]	5.7	0.9112
AT4G16410			unknown protein		Lus10003907 [exp]	9.2	0.9415
AT2G01770		ATVIT1, VIT1	vacuolar iron transporter 1 (....		Lus10034583 [exp]	11.0	0.8434
AT1G08380		PSAO	photosystem I subunit O (.1)		Lus10013310 [exp]	11.6	0.9360
AT2G41290		SSL2	strictosidine synthase-like 2 ...		Lus10012095 [exp]	14.1	0.8991
AT1G17930			Aminotransferase-like, plant m...		Lus10000686 [exp]	15.3	0.9073

Compare expression of checked genes

Lus10028073 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.