Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-RHD1.1
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT4G10960 607 / 0 UGE5 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) AT1G64440 597 / 0 REB1, RHD1, UGE4 UDP-GLUCOSE 4-EPIMERASE, ROOT HAIR DEFECTIVE 1, ROOT EPIDERMAL BULGER1, NAD(P)-binding Rossmann-fold superfamily protein (.1) AT4G23920 595 / 0 ATUGE2, UGE2 UDP-GLC 4-EPIMERASE 2, UDP-D-glucose/UDP-D-galactose 4-epimerase 2 (.1) AT1G12780 494 / 1e-176 ATUGE1, UGE1 A. THALIANA UDP-GLC 4-EPIMERASE 1, UDP-D-glucose/UDP-D-galactose 4-epimerase 1 (.1) AT1G63180 491 / 1e-175 UGE3 UDP-D-glucose/UDP-D-galactose 4-epimerase 3 (.1) AT1G30620 266 / 4e-86 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 261 / 4e-84 DUR DEFECTIVE UGE IN ROOT, NAD(P)-binding Rossmann-fold superfamily protein (.1) AT4G20460 258 / 3e-83 NAD(P)-binding Rossmann-fold superfamily protein (.1) AT2G34850 173 / 3e-52 MEE25 maternal effect embryo arrest 25, NAD(P)-binding Rossmann-fold superfamily protein (.1) AT1G53500 98 / 3e-22 ATRHM2, ATMUM4, RHM2, MUM4 ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 2, ARABIDOPSIS THALIANA MUCILAGE-MODIFIED 4, NAD-dependent epimerase/dehydratase family 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.003G140900 [exp] 657 / 0 AT4G10960 606 / 0.0 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) Potri.003G123700 [exp] 495 / 3e-177 AT1G12780 641 / 0.0 A. THALIANA UDP-GLC 4-EPIMERASE 1, UDP-D-glucose/UDP-D-galactose 4-epimerase 1 (.1) Potri.006G022000 [exp] 260 / 4e-84 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.011G156100 [exp] 260 / 5e-84 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.001G459700 [exp] 256 / 3e-82 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.016G020000 [exp] 252 / 4e-81 AT1G30620 670 / 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.001G320000 [exp] 97 / 3e-22 AT3G23820 714 / 0.0 UDP-D-glucuronate 4-epimerase 6 (.1) Potri.017G059100 [exp] 94 / 6e-21 AT3G23820 724 / 0.0 UDP-D-glucuronate 4-epimerase 6 (.1) Potri.001G383500 [exp] 92 / 3e-20 AT1G78570 1190 / 0.0 REPRESSOR OF LRX1 1, ARABIDOPSIS THALIANA RHAMNOSE BIOSYNTHESIS 1, rhamnose biosynthesis 1 (.1)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10001822 [exp] 630 / 0 AT4G10960 615 / 0.0 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) Lus10003875 [exp] 623 / 0 AT4G10960 616 / 0.0 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) Lus10023074 [exp] 586 / 0 AT4G10960 585 / 0.0 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) Lus10032394 [exp] 495 / 4e-178 AT4G10960 494 / 8e-178 UDP-D-glucose/UDP-D-galactose 4-epimerase 5 (.1) Lus10002246 [exp] 477 / 4e-170 AT1G12780 592 / 0.0 A. THALIANA UDP-GLC 4-EPIMERASE 1, UDP-D-glucose/UDP-D-galactose 4-epimerase 1 (.1) Lus10029572 [exp] 475 / 1e-167 AT1G12780 585 / 0.0 A. THALIANA UDP-GLC 4-EPIMERASE 1, UDP-D-glucose/UDP-D-galactose 4-epimerase 1 (.1) Lus10038423 [exp] 266 / 1e-86 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) Lus10003496 [exp] 229 / 3e-72 AT1G30620 656 / 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) Lus10013107 [exp] 228 / 1e-71 AT1G30620 652 / 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) Lus10016640 [exp] 105 / 8e-25 AT3G23820 746 / 0.0 UDP-D-glucuronate 4-epimerase 6 (.1)
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
Representative CDS sequence Show only first row Show all	>Potri.001G090700.1 pacid=42787790 polypeptide=Potri.001G090700.1.p locus=Potri.001G090700 ID=Potri.001G090700.1.v4.1 annot-version=v4.1 ATGGCCTATAATATTCTGGTTACCGGCGGTGCTGGTTACATAGGAAGCCACACGGTGCTGCAACTTTTATTAGGCGGCTACAACACTGTGGTTGTTGATA ACCTCGACAACGCCTCTGATATTGCTCTTAAAAGAGTTAAAGAACTCGCCGGTGATTTCGGCAAAAACCTCGTCTTTCACCAGGTTGATCTCCGGGACAA GCCGGCTCTGGAAAATGTTTTCGCCGAGACAAAGTTTGATGCTGTCATTCACTTTGCTGGGCTGAAAGCAGTTGGTGAGAGTATGCAGAAACCATTGCTT TACTTCAACAATAATCTCATTGGAACAATTACTCTGCTAGAAGTTATGGCTGCTCATGGATGCAAGCAGTTGGTGTTTTCATCTTCAGCTACTGTTTATG GTTGGCCGAAGGAGGTTCCATGTACAGAAGAGTTCCCTTTGTCTGCTGCAAACCCATATGGAAGAACCAAGCTTTTCATTGAAGAGATCTGCCGCGATAT CTACAGTTCAGATTCTGAATGGAAGATCATATTACTCAGATACTTTAATCCAGTTGGTGCACATCCAAGTGGCTGTATTGGTGAGGATCCTCGTGGAATT CCAAATAATCTCATGCCCTATGTGCAGCAAGTTGCTGTTGGCAGGAGGCCTCATCTAACAGTTTTTGGAACTGATTATCCAACAAAAGACGGTACCGGGG TACGTGATTACATTCATGTTGTCGATTTAGCAGATGGGCACATTGCTGCATTGCGTAAGCTCTCTGAAGCTAATATAGGTTGTGAAGTGTACAACTTGGG AACAGGGAAAGGTACATCAGTTCTGGAGATGGTCGCAGCATTTGAAAAGGCATCTGGAAAGAAAATTCCTCTTGTAATGGCTGATCGGCGACCTGGTGAT GCTGAAACTGTGTATGCAGCAACAGAGAAGGCAGAACGTGAATTGAGTTGGAAGGCAAACTATGGCGTTGATGAGATGTGTAGGGATCAATGGAACTGGG CCAGCAAGAACCCTTATGGCTATGGATCTCCTGACGGCACAAACTGA
AA sequence Show only first row Show all	>Potri.001G090700.1 pacid=42787790 polypeptide=Potri.001G090700.1.p locus=Potri.001G090700 ID=Potri.001G090700.1.v4.1 annot-version=v4.1 MAYNILVTGGAGYIGSHTVLQLLLGGYNTVVVDNLDNASDIALKRVKELAGDFGKNLVFHQVDLRDKPALENVFAETKFDAVIHFAGLKAVGESMQKPLL YFNNNLIGTITLLEVMAAHGCKQLVFSSSATVYGWPKEVPCTEEFPLSAANPYGRTKLFIEEICRDIYSSDSEWKIILLRYFNPVGAHPSGCIGEDPRGI PNNLMPYVQQVAVGRRPHLTVFGTDYPTKDGTGVRDYIHVVDLADGHIAALRKLSEANIGCEVYNLGTGKGTSVLEMVAAFEKASGKKIPLVMADRRPGD AETVYAATEKAERELSWKANYGVDEMCRDQWNWASKNPYGYGSPDGTN

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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
AT4G10960		UGE5	UDP-D-glucose/UDP-D-galactose ...		Potri.001G090700 [exp]	0	1	Pt-RHD1.1
AT3G02360			6-phosphogluconate dehydrogena...		Potri.017G106900 [exp]	17.60	0.7121	GND.2
AT5G15860		ICME, ATPCME	Isoprenylcysteine methylestera...		Potri.017G110700 [exp]	39.23	0.7227
AT2G38905			Low temperature and salt respo...		Potri.010G217200 [exp]	58.13	0.7183
AT5G60900		RLK1	receptor-like protein kinase 1...		Potri.001G153800 [exp]	74.33	0.7195
AT5G24080			Protein kinase superfamily pro...		Potri.015G026300 [exp]	93.46	0.6964
AT5G13420			Aldolase-type TIM barrel famil...		Potri.001G068200 [exp]	104.46	0.6771
AT4G08570			Heavy metal transport/detoxifi...		Potri.005G167000 [exp]	238.44	0.6703

Compare expression of checked genes

Potri.001G090700 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.