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 AT4G11080 357 / 4e-119 3xHMG-box1 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) AT4G23800 352 / 5e-117 3xHMG-box2, AT4G23800 3xHigh Mobility Group-box2, HMG (high mobility group) box protein (.1), HMG (high mobility group) box protein (.2) AT1G20693 58 / 4e-10 HMGBETA1, NFD2, NFD02, HMGB2 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 2, NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 02, HIGH MOBILITY GROUP BETA 1, high mobility group B2 (.1.2.3) AT1G20696 57 / 7e-10 NFD3, NFD03, HMGB3 high mobility group B3 (.1.2.3) AT2G17560 55 / 6e-09 NFD4, NFD04, HMGB4 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D4, high mobility group B4 (.1.2.3) AT3G28730 57 / 1e-08 NFD, SSRP1, ATHMG NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D, high mobility group (.1) AT4G35570 52 / 6e-08 NFD5, NFD05, HMGD, HMGB5 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR 5, high mobility group B5 (.1) AT3G51880 52 / 6e-08 AtHMGB1, NFD1, HMGB1 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D1, high mobility group B1 (.1.2.3.4) AT2G34450 50 / 4e-07 HMG-box (high mobility group) DNA-binding family protein (.1), HMG-box (high mobility group) DNA-binding family protein (.2) AT5G23420 48 / 6e-06 HMGB6 high-mobility group box 6 (.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 Lus10001909 [exp] 667 / 0 AT4G11080 496 / 2e-173 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Lus10032379 [exp] 422 / 1e-143 AT4G11080 481 / 1e-167 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Lus10023091 [exp] 221 / 5e-69 AT4G11080 279 / 1e-92 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Lus10033954 [exp] 227 / 1e-68 AT4G11080 283 / 5e-91 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Lus10023090 [exp] 180 / 4e-53 AT4G23800 195 / 1e-59 3xHigh Mobility Group-box2, HMG (high mobility group) box protein (.1), HMG (high mobility group) box protein (.2) Lus10033951 [exp] 178 / 1e-50 AT4G11080 214 / 5e-65 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Lus10012252 [exp] 61 / 3e-11 AT1G20693 164 / 1e-53 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 2, NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 02, HIGH MOBILITY GROUP BETA 1, high mobility group B2 (.1.2.3) Lus10016025 [exp] 61 / 7e-11 AT1G20693 192 / 7e-64 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 2, NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP D 02, HIGH MOBILITY GROUP BETA 1, high mobility group B2 (.1.2.3) Lus10035511 [exp] 59 / 1e-09 AT3G51880 152 / 2e-46 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D1, high mobility group B1 (.1.2.3.4)
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.003G138000 [exp] 393 / 2e-132 AT4G11080 302 / 1e-97 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Potri.001G093700 [exp] 391 / 9e-132 AT4G11080 325 / 2e-106 3xHigh Mobility Group-box1, HMG (high mobility group) box protein (.1) Potri.005G101400 [exp] 65 / 2e-12 AT1G20696 112 / 2e-32 high mobility group B3 (.1.2.3) Potri.005G252600 [exp] 63 / 1e-11 AT1G20696 147 / 7e-46 high mobility group B3 (.1.2.3) Potri.010G189900 [exp] 62 / 4e-11 AT3G51880 129 / 3e-38 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D1, high mobility group B1 (.1.2.3.4) Potri.002G009000 [exp] 61 / 5e-11 AT1G20696 146 / 8e-46 high mobility group B3 (.1.2.3) Potri.008G067400 [exp] 55 / 9e-09 AT3G51880 100 / 4e-27 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D1, high mobility group B1 (.1.2.3.4) Potri.007G000900 [exp] 45 / 3e-05 AT5G23420 156 / 8e-48 high-mobility group box 6 (.1.2) Potri.004G124000 [exp] 46 / 5e-05 AT3G28730 875 / 0.0 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D, high mobility group (.1) Potri.017G078500 [exp] 45 / 8e-05 AT3G28730 836 / 0.0 NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR D, high mobility group (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0114 [flax] [poplar] HMG-box PF00505 [flax] [poplar] HMG_box HMG (high mobility group) box
Representative CDS sequence Show only first row Show all	>Lus10003904 pacid=23144347 polypeptide=Lus10003904 locus=Lus10003904.g ID=Lus10003904.BGIv1.0 annot-version=v1.0 ATGGCCGACGTAGCAGTGCCTTCCTCCTCACCGATTCCCACCAAAAAGGGCAGGAAGCCAAGCAAAAAAGTTCTGAAGCCGAAGGCAGCATCGACGAACG ATGCCAACATCCAGGCTCAAGAGCTAACTGGGTCCTCTAGTGCGGTTCCTCCTCCTCTCTCGGAGACATCCGGTCAGATGAAAGAGAATCACCCAAGCCT CTCTTCCACCAAGAAGGGAAAAGGAAAGATGGCCAAAGGTGCTAAGCAGGATTCCTTCGACAAGGAGTTGGAACAGATGCAGGAAATGCTTAAGCAATTG AAGCTGGAGAAGGAGAAGACCGAAGAGATTCTGAAGGAGAAAGACGAGATGTTGAAAGCCAGAGACGAAGAGCTGGAGAACAAGGGGAAGCAGCAAGAGA AGATGCAGGCGGAGCTTAAGAAACTGCAGAAGTTGAAGGAGTTCAGGCCCAACCTCAACTTCCAGATATTGAAAGATAACGAGCAGCCAGACAAGAAGAG CAAGAAGAAAAACGGCAGCGGGTCTGACGCGAAAAGGCCATCTACTCCTTACATCCTCTGGTGCAAAGATCAGTGGAATGAGATTAAGAAGGAAAACCCT AATGCTGATTTCAAAGAAGTATCCAACATTTTGGGAGCCAAGTGGAAGACTGTTAGTGCGGAGGACAAGAAGCCATATGAGGAGAAGTATCAGGTTGGAA AGGAAGCTTATTTGCAGGTGGCAACAAAGGAGAAACGCGAGACTGAAGCCATGAAGCTCTTGGAAGAGGAGCAGAAACAAAAGACTGCCATGGAGTTGCT TCAACAGTACCTTCAATTCATACATGATGCAGCGGATGACCAAGGGAGCAAGAAGACAAAGAAAGAAAAAGACCCATTGAAACCAAAACAACCCATGTCT GCTTTCTTCATCTTCTCTAATGAGAGAAGGGCTGCATTGCTTGCTGACAAAAAGAATGTTACTGAGGCTGCAAAGATTGCCGGTGAAGAATGGAAGAACA TGACAGAGAAACAGAAATCACCTTATGTAAAGGTAGCTAAGAAGAATAAGGACAACTACTTGATTGAGATGGAGGCATATAAGCTGAAGAAGGAAGAAGA AGCCATGAATCTCATGAAGGAAGAGGAAGAAAATCTAAAACTTCAGAAGCAGGAAGCCATGCAATTGCTGAAGAAGAAGGAGAAAACAGACAACATAATC AAGAAAACCAAAGAAGAGGAAAGGCTGAAGAAACAGAAGAAGAACCAGAACACAGATCCAAACAAGCCAAAGAAACCTGCATCCTCTTTCTTCTTATTCA GCAAAGAAGCAAGGAAAAACATAATGCAGGAACACCCTGAAGTCAACAACACCACAGTTACTGCACGAATCTCTTTGAAGTGGAAGGAACTCAGCGAGGA GGAGAGGCAAATCTGGAATGCCAAAGCTACAGAAGCCATGGATGTTTACAAAAAGGAAATAGAAGAGTACAACAAGTCTTGTGCTGCAGGTGCATCTGCC GAGAATCAATAA
AA sequence Show only first row Show all	>Lus10003904 pacid=23144347 polypeptide=Lus10003904 locus=Lus10003904.g ID=Lus10003904.BGIv1.0 annot-version=v1.0 MADVAVPSSSPIPTKKGRKPSKKVLKPKAASTNDANIQAQELTGSSSAVPPPLSETSGQMKENHPSLSSTKKGKGKMAKGAKQDSFDKELEQMQEMLKQL KLEKEKTEEILKEKDEMLKARDEELENKGKQQEKMQAELKKLQKLKEFRPNLNFQILKDNEQPDKKSKKKNGSGSDAKRPSTPYILWCKDQWNEIKKENP NADFKEVSNILGAKWKTVSAEDKKPYEEKYQVGKEAYLQVATKEKRETEAMKLLEEEQKQKTAMELLQQYLQFIHDAADDQGSKKTKKEKDPLKPKQPMS AFFIFSNERRAALLADKKNVTEAAKIAGEEWKNMTEKQKSPYVKVAKKNKDNYLIEMEAYKLKKEEEAMNLMKEEEENLKLQKQEAMQLLKKKEKTDNII KKTKEEERLKKQKKNQNTDPNKPKKPASSFFLFSKEARKNIMQEHPEVNNTTVTARISLKWKELSEEERQIWNAKATEAMDVYKKEIEEYNKSCAAGASA ENQ

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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
AT4G11080		3xHMG-box1	3xHigh Mobility Group-box1, HM...		Lus10003904 [exp]	0	1
AT2G26180		IQD6	IQ-domain 6 (.1)		Lus10013522 [exp]	1.0	0.9720
AT3G02400	FHA		SMAD/FHA domain-containing pro...		Lus10018056 [exp]	2.4	0.9582
AT5G48480			Lactoylglutathione lyase / gly...		Lus10020399 [exp]	3.2	0.9693
AT5G37010			unknown protein		Lus10031372 [exp]	4.0	0.9546
AT5G62710			Leucine-rich repeat protein ki...		Lus10036672 [exp]	4.1	0.9444
AT5G02560		HTA12	histone H2A 12 (.1.2)		Lus10004945 [exp]	4.9	0.9656
AT1G09200			Histone superfamily protein (....		Lus10005271 [exp]	5.5	0.9630
AT3G45980		H2B, HTB9	HISTONE H2B, Histone superfami...		Lus10017292 [exp]	6.0	0.9670
AT1G69770		CMT3	chromomethylase 3 (.1)		Lus10017720 [exp]	7.3	0.9514
AT3G57830			Leucine-rich repeat protein ki...		Lus10021022 [exp]	10.8	0.9362

Compare expression of checked genes

Lus10003904 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.