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 AT3G63520 236 / 4e-70 ATNCED1, ATCCD1, CCD1 carotenoid cleavage dioxygenase 1 (.1) AT1G78390 183 / 8e-50 ATNCED9, NCED9 nine-cis-epoxycarotenoid dioxygenase 9 (.1) AT1G30100 177 / 6e-48 ATNCED5, NCED5 nine-cis-epoxycarotenoid dioxygenase 5 (.1) AT3G14440 176 / 2e-47 SIS7, ATNCED3, STO1, NCED3 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) AT4G18350 166 / 6e-44 ATNCED2, NCED2 nine-cis-epoxycarotenoid dioxygenase 2 (.1) AT4G19170 161 / 2e-42 CCD4, NCED4 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) AT3G24220 150 / 8e-39 ATNCED6, NCED6 nine-cis-epoxycarotenoid dioxygenase 6 (.1) AT4G32810 74 / 1e-13 MAX4, CCD8, ATCCD8 MORE AXILLARY BRANCHING 4, carotenoid cleavage dioxygenase 8 (.1) AT2G44990 58 / 1e-08 MAX3, CCD7, ATCCD7 carotenoid cleavage dioxygenase 7 (.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.018G043500 [exp] 1242 / 0 AT3G63520 243 / 7e-73 carotenoid cleavage dioxygenase 1 (.1) Potri.006G239300 [exp] 1018 / 0 AT3G63520 240 / 8e-72 carotenoid cleavage dioxygenase 1 (.1) Potri.006G239402 [exp] 859 / 0 AT3G63520 208 / 1e-59 carotenoid cleavage dioxygenase 1 (.1) Potri.006G239200 [exp] 844 / 0 AT3G63520 135 / 3e-34 carotenoid cleavage dioxygenase 1 (.1) Potri.018G042650 [exp] 698 / 0 AT3G63520 198 / 3e-56 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265400 [exp] 218 / 3e-63 AT3G63520 908 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265900 [exp] 217 / 4e-63 AT3G63520 880 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265600 [exp] 216 / 1e-62 AT3G63520 878 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.009G060500 [exp] 209 / 1e-59 AT3G63520 918 / 0.0 carotenoid cleavage dioxygenase 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 Lus10009513 [exp] 765 / 0 AT3G63520 219 / 4e-64 carotenoid cleavage dioxygenase 1 (.1) Lus10042829 [exp] 635 / 0 AT3G63520 207 / 2e-59 carotenoid cleavage dioxygenase 1 (.1) Lus10029513 [exp] 233 / 3e-67 AT3G63520 901 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10019710 [exp] 214 / 1e-61 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10016410 [exp] 209 / 1e-57 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10035696 [exp] 185 / 1e-50 AT4G19170 813 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10023673 [exp] 176 / 2e-47 AT3G24220 706 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10026185 [exp] 142 / 4e-36 AT3G14440 682 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Lus10011750 [exp] 132 / 1e-32 AT3G24220 657 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10037874 [exp] 109 / 5e-28 AT3G63520 54 / 4e-09 carotenoid cleavage dioxygenase 1 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description PF03055 [poplar] [flax] RPE65 Retinal pigment epithelial membrane protein
Representative CDS sequence Show only first row Show all	>Potri.018G043000.1 pacid=42801115 polypeptide=Potri.018G043000.1.p locus=Potri.018G043000 ID=Potri.018G043000.1.v4.1 annot-version=v4.1 ATGACATATACATCATCAATGGCTTTTCATGTGAATTGCTCTGTACAAAGTCGGCCTTCTCCCTTCGAAAACATCGATCGTTTTAAGAATAGGTTGTCTT CTTCTTACAAGCCATTATTGAAAGAGTTGCAGCAACTTCCCATGCAACTTGATGTTTCGAAAAGCATAAGAAATGCTTCTGTCAAACTCTTGGATGCATT TGTGGATTCATTATTTCAGTTTGCTGACCAGCCCGTCCTCCCTTCTCAGAGTAACTTTGCGCCGGTTGATGAACTGAACGAACCTCTTGCTATCACCAGC ATTGAGGGCAAAGTCCCATATGATTTTCCTGAAGGTGTCTACATAAGAAACGGACCAAATCCACTCTTTGGTGGTCTAAAATCTACGAGTTCAGTATTTG GAAAGACCGGTCATATGTGGATTGAAGGAGAGGGAATGCTTCACGCTGTGTGCTTTGACAAAGAAAGTGATGATGGTGAAACATGGACGGTTCTGTACAA TAATAGACATGTCGAAACCGAAACATACAAGATTGAAATACAAAGAGACAAGCCATCTTTTCTTCCAGCCATTGAAGGCAGCCCGCCCGCCATTTTGTTA TCATACTTATTAAATATGCTGCGATTTGGAAAAGTCAACAAAGATCTTAGCAACACCAATGTTTTCGAGCATTCAGGGAAGTTCTACTCAATTGCTGAAA ATCACATCCCTCAAGAGATTGACATCTTTTCCCTTCAGACTTTAGGCGATTGGGATATAAATGGAACTTGGCATCGACCTTTCAACAGCCACCCAAAGAG AGCACCAGGTACTGGAGAGTTGGTTGTCTTTGGGGTGGATGCGATGAAACCTTTCATGGAACTGGGAGTTGTTTCTGCTGATGGAAAGAGACTCGTACAT AAGGTTGATCTCAAGTTCGACAGATGCACCCTTAGTCATGACATGGGGGTAACAGAGAGGTATAATGTGATCATGGATTTTCCACTAACAATAGATATAC AGAGACTCATCAAGGGAGGCCCGTTGATAAAGTTTGAAAAAGAAGAATATGCAAGAATCGGGATTATGCCCCGCTGTGGCAATGCCGACTCAATCCGTTG GTTCGAGGTGGAACCAAATTGCACATTTCACATTCTTAATTGTTTCGAGGAAGGAGATGAGGTTGTAGTGAGGGGATGCAGGTCCCTTGAATCAATCATA TCGGAATCTTGCGATATGGATTTGGACAAGTTTGAGTGGGTCTCCGGAAGACTTAGGAGCAAAGATCCTGTTGATCAGCAAGATGCTAAACATTTCAAAA ACGATGAACTGTTGTTCTGCCGATCTTATGAATGGAGACTAAACATGGAAACCGGAGAGGTTAAAGAGAGAAACCTAACTGGAACTCTATTATCTATCGA GTTTCCAATGATCAATCCAAATTTTAATGGTGTAAAGAACAAATTTGGCTACGCCCAAACTGTTCATGGCTTGGCAAGTGCTACTTCAGGCATGCCAAAA TTTGGAGGTCTAGCCAAGCTGTACTTTGAAGAGACTGCCAATAAGGAATGGGAGGAATCTGAAGGGCATATAAAGGTGGAGTACCATGAATTCGTGGGAA ACACCTTCTGCACTGGAGCTGCCTTTGTCCCGAAAGAAGGCTGGCTTGAAGAAGATGATGGCTGGATCATCACTTTTGTTCATGATGAAGACACCGATAC GTCCAAAGTTTATATTATTGACACAAAGAATTTCACAAGTGAGCCAGTTGCCAAAATTACATTGCCATGTCGAGTCCCATATGGATTTCATGGAGCATTT ATGCCAACTCCATCGCACGAGTAA
AA sequence Show only first row Show all	>Potri.018G043000.1 pacid=42801115 polypeptide=Potri.018G043000.1.p locus=Potri.018G043000 ID=Potri.018G043000.1.v4.1 annot-version=v4.1 MTYTSSMAFHVNCSVQSRPSPFENIDRFKNRLSSSYKPLLKELQQLPMQLDVSKSIRNASVKLLDAFVDSLFQFADQPVLPSQSNFAPVDELNEPLAITS IEGKVPYDFPEGVYIRNGPNPLFGGLKSTSSVFGKTGHMWIEGEGMLHAVCFDKESDDGETWTVLYNNRHVETETYKIEIQRDKPSFLPAIEGSPPAILL SYLLNMLRFGKVNKDLSNTNVFEHSGKFYSIAENHIPQEIDIFSLQTLGDWDINGTWHRPFNSHPKRAPGTGELVVFGVDAMKPFMELGVVSADGKRLVH KVDLKFDRCTLSHDMGVTERYNVIMDFPLTIDIQRLIKGGPLIKFEKEEYARIGIMPRCGNADSIRWFEVEPNCTFHILNCFEEGDEVVVRGCRSLESII SESCDMDLDKFEWVSGRLRSKDPVDQQDAKHFKNDELLFCRSYEWRLNMETGEVKERNLTGTLLSIEFPMINPNFNGVKNKFGYAQTVHGLASATSGMPK FGGLAKLYFEETANKEWEESEGHIKVEYHEFVGNTFCTGAAFVPKEGWLEEDDGWIITFVHDEDTDTSKVYIIDTKNFTSEPVAKITLPCRVPYGFHGAF MPTPSHE

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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
AT3G63520		ATNCED1, ATCCD1...	carotenoid cleavage dioxygenas...		Potri.018G043000 [exp]	0	1
AT3G63520		ATNCED1, ATCCD1...	carotenoid cleavage dioxygenas...		Potri.018G043500 [exp]	2.82	0.9480
AT1G07390		AtRLP1	receptor like protein 1 (.1.2....		Potri.001G064900 [exp]	6.00	0.8767
					Potri.017G127501 [exp]	10.24	0.8154
AT5G09620			Octicosapeptide/Phox/Bem1p fam...		Potri.002G108800 [exp]	11.61	0.8154
					Potri.003G194950 [exp]	12.24	0.8154
AT4G34880			Amidase family protein (.1)		Potri.004G169400 [exp]	13.41	0.7700
AT3G04280		ARR22	response regulator 22 (.1.2.3)		Potri.003G172866 [exp]	14.42	0.7633
AT3G59850			Pectin lyase-like superfamily ...		Potri.007G144400 [exp]	17.94	0.7473
AT5G60900		RLK1	receptor-like protein kinase 1...		Potri.001G014700 [exp]	18.43	0.7016
AT4G27300			S-locus lectin protein kinase ...		Potri.010G018050 [exp]	19.00	0.7197

Compare expression of checked genes

Potri.018G043000 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.