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 AT3G16890 719 / 0 PPR40 pentatricopeptide (PPR) domain protein 40 (.1) AT5G39710 223 / 7e-63 EMB2745 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62910 218 / 8e-62 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 217 / 1e-61 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT5G59900 218 / 2e-60 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT3G53700 215 / 3e-60 MEE40 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63080 211 / 1e-59 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12700 211 / 7e-59 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G63400 207 / 2e-58 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63330 206 / 2e-58 Pentatricopeptide repeat (PPR) superfamily protein (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10032647 [exp] 761 / 0 AT3G16890 464 / 1e-159 pentatricopeptide (PPR) domain protein 40 (.1) Lus10032648 [exp] 462 / 4e-161 AT3G16890 225 / 1e-69 pentatricopeptide (PPR) domain protein 40 (.1) Lus10027916 [exp] 225 / 1e-63 AT5G39710 1038 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10027914 [exp] 220 / 6e-62 AT5G39710 1025 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10012068 [exp] 223 / 1e-61 AT5G39710 1028 / 0.0 EMBRYO DEFECTIVE 2745, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10039056 [exp] 216 / 3e-60 AT5G64320 832 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10043417 [exp] 216 / 8e-60 AT3G06920 1358 / 0.0 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10036238 [exp] 209 / 1e-58 AT4G20090 832 / 0.0 embryo defective 1025, Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10013283 [exp] 207 / 5e-58 AT1G05670 785 / 0.0 Pentatricopeptide repeat (PPR-like) superfamily protein (.1), Pentatricopeptide repeat (PPR-like) superfamily protein (.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.008G108300 [exp] 822 / 0 AT3G16890 771 / 0.0 pentatricopeptide (PPR) domain protein 40 (.1) Potri.006G271400 [exp] 223 / 5e-64 AT1G12700 486 / 3e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.016G025600 [exp] 224 / 6e-64 AT3G22470 426 / 3e-141 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G046000 [exp] 224 / 1e-63 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.018G038300 [exp] 220 / 4e-63 AT1G12700 490 / 8e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.004G074500 [exp] 216 / 9e-62 AT1G62930 478 / 1e-162 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G015900 [exp] 218 / 4e-61 AT5G64320 878 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.013G034200 [exp] 215 / 4e-61 AT1G12700 511 / 6e-174 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.006G242500 [exp] 214 / 5e-61 AT1G62930 473 / 1e-160 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.006G271200 [exp] 214 / 5e-61 AT1G62930 475 / 3e-161 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [flax] [poplar] TPR PF01535 [flax] [poplar] PPR PPR repeat
Representative CDS sequence Show only first row Show all	>Lus10043104 pacid=23168320 polypeptide=Lus10043104 locus=Lus10043104.g ID=Lus10043104.BGIv1.0 annot-version=v1.0 ATGACAGTCTTTTCACTAGCTCCTCGAGCTGCTTCACCTGCATTCAAAGCAAATCTTTCTCATTCATGCCACTCGCTCAATCCGTCCTCCAAGTTCAATT CCGGAAGGCAATCAGCCATCAACACTTCAGTAACAGATCCTTCAACCGGCAATGTGCATCCATCCGACTCAATCTCAAAATATTCCCATGCCGCTGATAA AAACCAGCATAAAACAGTCGATCGAAGTTACATTTCTCGACTTCTCTCGAGAAAGGACTGGTCTTTGTTGCTGAACCACGAGCTGCGAGCCAAGAGGATA GTGTTGAACTCGCAGTTCACGGTTAGTGTTCTGCAGAATCAGGAGAATCCATTGATGGCTTTAAAGTATTACATCTGGATTTCTAGCGTCGACCCTCATT TTGCCAAAGATCAATCGGTTAGAGGCTCTTTAGCTAACTCCCTTTACCGTAAGGGTCCTGTTCTTTTGTCAGCTGAGTTGCTTAGAGATATTAAAGACTC TGGATTCCAAGTTAGTGAAGATTTGGTTTGCGTTTTGTTCTCTAGTTGGGGCAGATTAGGGTTGGCTAAGTATTGCAATGAAGTATTTGGACAGATTTCG TATCTTGGTATCAGTCCTAGTACGAGGTTATATAATGCAGTTATTGATGCATTGGTGAAGGCAAATTCTCTTGATCTGGCATACTCAAAGTTCCAGCAGA TGGCTTCTGATAGTTGCAAGCCTGACAGGTTCACTTATAATATTCTCATCCATGGAGTTTGTCGGGTTGGGGTGATGGACGAGGCGCTCCGGCTCGCTAA GCAAATGGAAGGTCAGGGTTATTTTCCTAATGTTTTCACCTACACCATCTTGGTTGATGGATTCTGCAATGCCAATAGGATTGATGACGCATTTGGTATT TTCGAGACGATGAAGGCTCGGAATGTTCACCCTAATGAAGCTACTATTAGATCGCTGGTTCATGGCGTGTTTCGTAACATTACCCCCGATAAGGCATTTG AACTTATGATTGCTTTCGTCGACAGGGAGTCTATCTTAAGGAAGTTGGCTTGTGATACTTTGCTCTGTTGCCTATCTGAGAACTCCATGGCAAAAGAAGC TGGTTCCTTGTTGAGGAAACTTGGGGACACTGGTTATGTACCAGATAGTTCTGCGTTTAACACTGTGATGACTTGTTTGATCAAAGGCTTGGATCTTAGT GAGACATGTAAGATACTAGATACATTTGTTGGGCGAGGAATGAATATGGGAATCAACAATTATATAGCATTAATTGAAGGTTTATACAGAGAAGGAAAAT GTGAAGAGGCTGAACGATATTTCCATCGAATGGTGAAAGCTGGCTTTCTGGCTACTGCTGTTTCCTATAACATGGTGATTGATTGTTTGTGCAAAGTTAA TAAGATAGACAAAGCAGACAAAGCTTTCCAAGAGATGCAGCAAAAAGGTATCACCCCAAACCTTGTTACATTCAACACTCTTCTAAGTGGTTATTGCAAG AAGGGAGAGGTTCGCGGGGCCAGGAAACTGTTGGAGATGCTCTTAGAACACGGGTTTAAACCAGACATATTCACTTTTACTTCAATAATCGATGGCCTTT CCCGAGTAAAACATCTTGAGGATGCATTAGGCTGTTTCAGGGAAATGGTAGAGTGGGGTGTCTCTCCTAATGCTGTGACGTACAATATATTGCTGCGATC CCTGGCTGTCAATGGTGATGTTGCTGGTTCTATTGAAATCTTAAGGAAGATGCAAAGAGATGGAATAGGTCCTGATGTTTCTGCTTTCAATGCTCTCATC CAACGTTTTTGTAGGATGGGAAAAGTGAAGAAAGCACATAACCTTTATGCCTCCATGCTGGCATTAAATTTGGATCCTGATACTCATATGAAGGCACTCT CTGAATTAAGGAGACCTGATGAAGCCAAAGAGATACTTGACTCGATGGAAGGTAATAGTTCTCTTCCAGACATGCAATTTGATTGTGAGCAATCTACTCC GGCAGGGCCACTATGTAGAAGCTGA
AA sequence Show only first row Show all	>Lus10043104 pacid=23168320 polypeptide=Lus10043104 locus=Lus10043104.g ID=Lus10043104.BGIv1.0 annot-version=v1.0 MTVFSLAPRAASPAFKANLSHSCHSLNPSSKFNSGRQSAINTSVTDPSTGNVHPSDSISKYSHAADKNQHKTVDRSYISRLLSRKDWSLLLNHELRAKRI VLNSQFTVSVLQNQENPLMALKYYIWISSVDPHFAKDQSVRGSLANSLYRKGPVLLSAELLRDIKDSGFQVSEDLVCVLFSSWGRLGLAKYCNEVFGQIS YLGISPSTRLYNAVIDALVKANSLDLAYSKFQQMASDSCKPDRFTYNILIHGVCRVGVMDEALRLAKQMEGQGYFPNVFTYTILVDGFCNANRIDDAFGI FETMKARNVHPNEATIRSLVHGVFRNITPDKAFELMIAFVDRESILRKLACDTLLCCLSENSMAKEAGSLLRKLGDTGYVPDSSAFNTVMTCLIKGLDLS ETCKILDTFVGRGMNMGINNYIALIEGLYREGKCEEAERYFHRMVKAGFLATAVSYNMVIDCLCKVNKIDKADKAFQEMQQKGITPNLVTFNTLLSGYCK KGEVRGARKLLEMLLEHGFKPDIFTFTSIIDGLSRVKHLEDALGCFREMVEWGVSPNAVTYNILLRSLAVNGDVAGSIEILRKMQRDGIGPDVSAFNALI QRFCRMGKVKKAHNLYASMLALNLDPDTHMKALSELRRPDEAKEILDSMEGNSSLPDMQFDCEQSTPAGPLCRS

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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
AT3G16890		PPR40	pentatricopeptide (PPR) domain...		Lus10043104 [exp]	0	1
AT5G22760			PHD finger family protein (.1)		Lus10009383 [exp]	4.2	0.9272
AT4G15840			BTB/POZ domain-containing prot...		Lus10037522 [exp]	9.2	0.9104
AT5G65930		PKCBP, ZWI	POTATO KINESIN-LIKE CALMODULIN...		Lus10009426 [exp]	9.8	0.9097
AT1G55090			carbon-nitrogen hydrolase fami...		Lus10017307 [exp]	10.0	0.8633
AT4G35800		RNA_POL_II_LSRN...	RNA polymerase II large subuni...		Lus10028403 [exp]	12.5	0.9185
AT5G22760			PHD finger family protein (.1)		Lus10020532 [exp]	14.1	0.9116
AT3G54280		RGD3, ATBTAF1, ...	ROOT GROWTH DEFECTIVE 3, DNA b...		Lus10013625 [exp]	14.9	0.9249
AT1G13040			Pentatricopeptide repeat (PPR-...		Lus10011646 [exp]	15.1	0.8856
AT2G25320			TRAF-like family protein (.1)		Lus10001490 [exp]	15.5	0.9060
AT4G32620			Enhancer of polycomb-like tran...		Lus10041252 [exp]	16.0	0.9039

Compare expression of checked genes

Lus10043104 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.