Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT1G78570 1190 / 0 ATRHM1, RHM1, ROL1 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) AT1G53500 1132 / 0 ATRHM2, ATMUM4, RHM2, MUM4 ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 2, ARABIDOPSIS THALIANA MUCILAGE-MODIFIED 4, NAD-dependent epimerase/dehydratase family protein (.1) AT3G14790 1132 / 0 ATRHM3, RHM3 ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 3, rhamnose biosynthesis 3 (.1) AT1G63000 504 / 2e-176 UER1, NRS/ER "UDP-4-KETO-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE-4-REDUCTASE 1", nucleotide-rhamnose synthase/epimerase-reductase (.1) AT4G20460 111 / 6e-26 NAD(P)-binding Rossmann-fold superfamily protein (.1) AT2G28760 104 / 5e-24 UXS6 UDP-XYL synthase 6 (.1.2.3) AT5G59290 100 / 1e-22 ATUXS3, UXS3 UDP-glucuronic acid decarboxylase 3 (.1.2) AT3G46440 99 / 2e-22 UXS5 UDP-XYL synthase 5 (.1.2) AT1G30620 96 / 6e-21 MURUS4, HSR8, UXE1, MUR4 UDP-D-XYLOSE 4-EPIMERASE 1, MURUS 4, HIGH SUGAR RESPONSE8, NAD(P)-binding Rossmann-fold superfamily protein (.1), NAD(P)-binding Rossmann-fold superfamily protein (.2), NAD(P)-binding Rossmann-fold superfamily protein (.3) AT5G44480 94 / 3e-20 DUR DEFECTIVE UGE IN ROOT, NAD(P)-binding Rossmann-fold 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 Potri.011G103700 [exp] 1271 / 0 AT1G78570 1211 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Potri.006G272700 [exp] 1060 / 0 AT1G78570 1078 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Potri.001G112000 [exp] 496 / 2e-173 AT1G63000 535 / 0.0 "UDP-4-KETO-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE-4-REDUCTASE 1", nucleotide-rhamnose synthase/epimerase-reductase (.1) Potri.003G120000 [exp] 492 / 1e-171 AT1G63000 532 / 0.0 "UDP-4-KETO-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE-4-REDUCTASE 1", nucleotide-rhamnose synthase/epimerase-reductase (.1) Potri.011G156100 [exp] 104 / 9e-24 AT1G30620 712 / 0.0 UDP-D-XYLOSE 4-EPIMERASE 1, MURUS 4, HIGH SUGAR RESPONSE8, NAD(P)-binding Rossmann-fold superfamily protein (.1), NAD(P)-binding Rossmann-fold superfamily protein (.2), NAD(P)-binding Rossmann-fold superfamily protein (.3) Potri.006G022000 [exp] 100 / 3e-22 AT1G30620 676 / 0.0 UDP-D-XYLOSE 4-EPIMERASE 1, MURUS 4, HIGH SUGAR RESPONSE8, NAD(P)-binding Rossmann-fold superfamily protein (.1), NAD(P)-binding Rossmann-fold superfamily protein (.2), NAD(P)-binding Rossmann-fold superfamily protein (.3) Potri.010G207200 [exp] 98 / 5e-22 AT2G28760 625 / 0.0 UDP-XYL synthase 6 (.1.2.3) Potri.001G459700 [exp] 98 / 1e-21 AT1G30620 730 / 0.0 UDP-D-XYLOSE 4-EPIMERASE 1, MURUS 4, HIGH SUGAR RESPONSE8, NAD(P)-binding Rossmann-fold superfamily protein (.1), NAD(P)-binding Rossmann-fold superfamily protein (.2), NAD(P)-binding Rossmann-fold superfamily protein (.3) Potri.001G237200 [exp] 96 / 3e-21 AT3G46440 637 / 0.0 UDP-XYL synthase 5 (.1.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10038146 [exp] 1197 / 0 AT1G78570 1228 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10042497 [exp] 1195 / 0 AT1G78570 1227 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10005560 [exp] 1106 / 0 AT1G78570 1123 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10010942 [exp] 1087 / 0 AT1G78570 1130 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10013695 [exp] 982 / 0 AT1G78570 1005 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10007355 [exp] 943 / 0 AT1G78570 982 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10020776 [exp] 924 / 0 AT1G78570 964 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1) Lus10006719 [exp] 504 / 1e-176 AT1G63000 531 / 0.0 "UDP-4-KETO-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE-4-REDUCTASE 1", nucleotide-rhamnose synthase/epimerase-reductase (.1) Lus10014147 [exp] 501 / 4e-175 AT1G63000 530 / 0.0 "UDP-4-KETO-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE-4-REDUCTASE 1", nucleotide-rhamnose synthase/epimerase-reductase (.1) Lus10038423 [exp] 105 / 4e-24 AT1G30620 682 / 0.0 UDP-D-XYLOSE 4-EPIMERASE 1, MURUS 4, HIGH SUGAR RESPONSE8, NAD(P)-binding Rossmann-fold superfamily protein (.1), NAD(P)-binding Rossmann-fold superfamily protein (.2), NAD(P)-binding Rossmann-fold superfamily protein (.3)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0063 [poplar] [flax] NADP_Rossmann PF01073 [poplar] [flax] 3Beta_HSD 3-beta hydroxysteroid dehydrogenase/isomerase family CL0063 [poplar] [flax] NADP_Rossmann PF04321 [poplar] [flax] RmlD_sub_bind RmlD substrate binding domain
Representative CDS sequence Show only first row Show all	>Potri.001G383500.3 pacid=42789330 polypeptide=Potri.001G383500.3.p locus=Potri.001G383500 ID=Potri.001G383500.3.v4.1 annot-version=v4.1 ATGGCTACCTATACTCCGAAGAACATCCTCATTACTGGAGCTGCTGGGTTTATCGCGTCCCATGTTTGCAATCGGCTTATCCGTAACTACCCTGATTATA AAATAGTTGTGCTTGACAAGCTTGACTATTGTTCAAACCTGAAAAATCTCCTCCCTTCCAAGTCATCCCCTAACTTTAAGTTTGTCAAGGGTGATGTTGG AAGTGCAGACCTTGTCAACTTCCTCCTGATCACGGAGTCGATTGACACAATTATGCACTTTGCAGCCCAGACCCATGTGGACAACTCTTTTGGTAACAGC TTTGAGTTCACCAAGAACAACATATATGGAACTCATGTCCTTTTAGAAGCTTGCAAAGTCACTGGTCAGATCAGGAGGTTCATCCATGTGAGCACAGATG AAGTATATGGGGAGACTGATGAAGACGCTGTTGTAGGAAATCATGAGGCCTCTCAACTTCTCCCAACTAACCCCTACTCTGCAACCAAAGCTGGAGCAGA AATGCTTGTTATGGCATATGGAAGGTCATATGGGCTGCCTGTGATAACCACTCGTGGGAACAATGTTTATGGTCCCAATCAGTTCCCTGAAAAATTAATT CCAAAGTTTATTCTCTTAGCCATGCAAGGGAAGCATCTTCCCATCCATGGTGATGGTTCTAATGTGAGAAGTTACTTGTATTGTGAGGATGTCGCTGAGG CTTTTGAAGTCATTCTTCACAAGGGAGAGGTAGGCCATGTTTACAATATAGGGACAAAGAAGGAAAGGAGAGTGATTGATGTAGCCAAAGATATTTGCAA CCTTTTCTCAAGGGACCCTGATACGAGCATCAAGTTTGTAGACAACAGACCATTCAATGACCAGAGGTACTTTTTGGATGATCAGAAGCTGAATAATTTG GGATGGTCAGAACATACTACATGGCAGGAGGGGTTGAGAAAGACTATGGAGTGGTACACTCAAAATCCTGATTGGTGGGGTGATGTCTCTGGAGCCCTGC TTCCTCATCCAAGAATGCTCATGATGCCTGGTGGGAGACATTTTGATGGGTCTGAAGAGAAAGATGCTTCTTATGTCTCAAATAATTCAAATCAGACCCG GATGGTGATTCCAGTTTCAAAAGGAAGCGGCTCTGGCTCTCCTCGAAAACCTTCGCTTAAGTTCCTGATCTATGGCAGGACTGGGTGGATTGGGGGTTTG CTTGGGAAGTTGTGTGAGAAACAAGGAATTTCCTATGAATATGGAAAGGGGCGCTTGGAAGATCGATCCTCACTTTTGTCAGATATTCAGAATGTTAGGC CTACCCATGTTTTTAATGCTGCTGGGGTCACTGGCAGGCCCAATGTTGATTGGTGTGAATCCCACAAGACAGAAACTATACGCACCAATGTTACTGGAAC TCTGACATTAGCAGATCTTTGCAGAGAGCACAACCTCCTGATGATGAATTTTGCTACAGGCTGCATATTTGAGTATAATGCTGGTCATCCAGAGGGTTCT GGCATTGGTTTCACCGAGGAAGACAAGCCCAATTTCATTGGTTCTTACTATTCAAAGACTAAGGCCATGGTCGAAGAGCTTTTGAAAGAGTATGACAATG TGTGCACCCTCAGAGTTAGAATGCCAATATCATCAGACCTAAACAACCCACGCAACTTCATTACAAAGATTTCTCGCTATAATAAGGTGGTGAACATTCC AAACAGCATGACTATCCTGGACGAACTTCTACCTATTTCAATTGAGATGGCAAAGAGGAACTTGAGAGGCATATGGAACTTCACAAACCCTGGTGTTGTG AGCCATAATGAGATTTTGGAGATGTACAAGAACTACATTAACCCGGACTTTACATGGGTTAACTTTGACCTAGAGGAGCAAGCCAAGGTGATAGTTGCCC CCCGGAGCAACAATGAGATGGATGCGTCCAAGCTGAAGAACGAGTTCCCTGAGTTGCTGCCAATCAAAGAGTCATTAATCAAGTATGTCTTTGAACCCAA CAAGAGAACCTAA
AA sequence Show only first row Show all	>Potri.001G383500.3 pacid=42789330 polypeptide=Potri.001G383500.3.p locus=Potri.001G383500 ID=Potri.001G383500.3.v4.1 annot-version=v4.1 MATYTPKNILITGAAGFIASHVCNRLIRNYPDYKIVVLDKLDYCSNLKNLLPSKSSPNFKFVKGDVGSADLVNFLLITESIDTIMHFAAQTHVDNSFGNS FEFTKNNIYGTHVLLEACKVTGQIRRFIHVSTDEVYGETDEDAVVGNHEASQLLPTNPYSATKAGAEMLVMAYGRSYGLPVITTRGNNVYGPNQFPEKLI PKFILLAMQGKHLPIHGDGSNVRSYLYCEDVAEAFEVILHKGEVGHVYNIGTKKERRVIDVAKDICNLFSRDPDTSIKFVDNRPFNDQRYFLDDQKLNNL GWSEHTTWQEGLRKTMEWYTQNPDWWGDVSGALLPHPRMLMMPGGRHFDGSEEKDASYVSNNSNQTRMVIPVSKGSGSGSPRKPSLKFLIYGRTGWIGGL LGKLCEKQGISYEYGKGRLEDRSSLLSDIQNVRPTHVFNAAGVTGRPNVDWCESHKTETIRTNVTGTLTLADLCREHNLLMMNFATGCIFEYNAGHPEGS GIGFTEEDKPNFIGSYYSKTKAMVEELLKEYDNVCTLRVRMPISSDLNNPRNFITKISRYNKVVNIPNSMTILDELLPISIEMAKRNLRGIWNFTNPGVV SHNEILEMYKNYINPDFTWVNFDLEEQAKVIVAPRSNNEMDASKLKNEFPELLPIKESLIKYVFEPNKRT

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DESeq2's median of ratios [POPLAR]

Mapped by: StringTie Salmon Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

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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	NWA:WT	NWB:WT	NWA:OE-ARK2	NWB:OE-ARK2	NWA:miRNA-ARK2	NWB:miRNA-ARK2	NW 0hr	WT H20	WT-NW	TUA1dEY NW	TUA1dEY+TUB15 NW	TUA1dY+TUB9 NW	Pde NW	NWA:WT GA	NWBWT GA	TW:WT	TW:WT GA	NWA:OE-ARK2 GA	NWB:OE-ARK2 GA	TW:OE-ARK2	TW:OE-ARK2 GA	NWA:miRNA-ARK2 GA	NWB:miRNA-ARK2 GA	TW:miRNA-ARK2	TW:miRNA-ARK2 GA	TW 2hr	TW 8hr	TW 24hr	TW 48hr	TW 96hr	TW 336hr	WT ACC	35S::etr1-1 H20	35S::etr1-1 ACC	LMX5::etr1-1 H20	LMX5::etr1-1 ACC	WT-TW	TUA1dEY TW	TUA1dEY+TUB15 TW	TUA1dY+TUB9 TW	Pde TW	OW:WT	OW:WT GA	OW:OE-ARK2	OW:OE-ARK2 GA	OW:miRNA-ARK2	OW:miRNA-ARK2 GA	OW 2hr	OW 8hr	OW 24hr	OW 48hr	OW 96hr	OW 336hr	Root CTR	Root LongCold	Root LongDrougt	Root LongHeat	Root LongSalt	Root ShortCold	Root ShortDrougt	Root ShortHeat	Root ShortSalt	Ptr root	Leaf CTR	Leaf LongCold	Leaf LongDrougt	Leaf LongHeat	Leaf LongSalt	Leaf ShortCold	Leaf ShortDrougt	Leaf ShortHeat	Leaf ShortSalt	Ptr leaf	Stem CTR	Stem LongCold	Stem LongDrougt	Stem LongHeat	Stem LongSalt	Stem ShortCold	Stem ShortDrougt	Stem ShortHeat	Stem ShortSalt	Ptr shoot	Ptr xylem	Ptr phloem	Ptr fiber	Ptr vessel	Ptr fiber vessel ray
AT1G78570		ATRHM1, RHM1, R...	REPRESSOR OF LRX1 1, ARABIDOPS...		Potri.001G383500 [exp]	0	1
AT2G43310			Ribosomal L18p/L5e family prot...		Potri.007G128100 [exp]	2.23	0.8994
AT1G61790			Oligosaccharyltransferase comp...		Potri.011G025700 [exp]	6.63	0.8265
AT3G02090		MPPBETA	Insulinase (Peptidase family M...		Potri.017G092400 [exp]	7.34	0.8945
AT1G78570		ATRHM1, RHM1, R...	REPRESSOR OF LRX1 1, ARABIDOPS...		Potri.011G103700 [exp]	7.48	0.8645
AT1G20200		HAP15, EMB2719	HAPLESS 15, EMBRYO DEFECTIVE 2...		Potri.004G176600 [exp]	9.79	0.8468
AT1G64160			Disease resistance-responsive ...		Potri.001G096680 [exp]	13.49	0.8370
AT1G64160			Disease resistance-responsive ...		Potri.013G142602 [exp]	14.14	0.8371
AT4G25030			unknown protein		Potri.010G219900 [exp]	14.28	0.8083
AT2G20420			ATP citrate lyase (ACL) family...		Potri.014G195700 [exp]	14.49	0.8578
AT1G64160			Disease resistance-responsive ...		Potri.013G142501 [exp]	16.15	0.8366

Compare expression of checked genes

Potri.001G383500 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.