Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	CCD1.5
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT3G63520 918 / 0 ATNCED1, ATCCD1, CCD1 carotenoid cleavage dioxygenase 1 (.1) AT1G78390 337 / 1e-107 ATNCED9, NCED9 nine-cis-epoxycarotenoid dioxygenase 9 (.1) AT4G19170 326 / 2e-104 CCD4, NCED4 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) AT1G30100 326 / 3e-104 ATNCED5, NCED5 nine-cis-epoxycarotenoid dioxygenase 5 (.1) AT3G14440 326 / 4e-104 SIS7, ATNCED3, STO1, NCED3 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) AT3G24220 317 / 5e-101 ATNCED6, NCED6 nine-cis-epoxycarotenoid dioxygenase 6 (.1) AT4G18350 301 / 8e-95 ATNCED2, NCED2 nine-cis-epoxycarotenoid dioxygenase 2 (.1) AT4G32810 76 / 3e-14 MAX4, CCD8, ATCCD8 MORE AXILLARY BRANCHING 4, carotenoid cleavage dioxygenase 8 (.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.001G265400 [exp] 1052 / 0 AT3G63520 908 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265900 [exp] 1006 / 0 AT3G63520 880 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265600 [exp] 1001 / 0 AT3G63520 878 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.011G112400 [exp] 345 / 9e-112 AT3G14440 868 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Potri.019G093400 [exp] 335 / 2e-107 AT4G19170 803 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.005G069100 [exp] 332 / 2e-106 AT4G19170 812 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.001G393800 [exp] 331 / 3e-106 AT3G14440 883 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Potri.011G084100 [exp] 320 / 8e-102 AT1G30100 799 / 0.0 nine-cis-epoxycarotenoid dioxygenase 5 (.1) Potri.009G152300 [exp] 315 / 4e-100 AT4G19170 539 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.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 Lus10029513 [exp] 935 / 0 AT3G63520 901 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10019710 [exp] 874 / 0 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10016410 [exp] 856 / 0 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10035696 [exp] 323 / 4e-103 AT4G19170 813 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10023673 [exp] 317 / 1e-100 AT3G24220 706 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10011750 [exp] 283 / 5e-88 AT3G24220 657 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10026185 [exp] 267 / 2e-82 AT3G14440 682 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Lus10029512 [exp] 206 / 1e-63 AT3G63520 211 / 9e-67 carotenoid cleavage dioxygenase 1 (.1) Lus10008443 [exp] 200 / 2e-58 AT4G19170 315 / 1e-102 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10009513 [exp] 201 / 2e-57 AT3G63520 219 / 4e-64 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.009G060500.10 pacid=42772898 polypeptide=Potri.009G060500.10.p locus=Potri.009G060500 ID=Potri.009G060500.10.v4.1 annot-version=v4.1 ATGGCGGAGAAATCACAAGTTGAGAAAAAGCAAGAGATCGGCGTCGGAGCAGGAAGCACGGTAGTGGAAGTGAATCCAAAGCCACAAAAAGGACTTACTT CAAAACTTATTGACTACTTGGAAAAGCTGATTGTTAAATTAATGTATGATACCTCTCAATCTCACCATTACCTCTCCGGCAACTTCGCTCCCGTTCCTGA TGAAACTCCTCCTGTTAAAGACCTTCCCGTTAAAGGCTACCTACCTGATTGCCTGAATGGGGAATTTGTGAGGGTGGGTCCAAACCCGAAGCTTGTACCA GTGGCTGGATACCATTGGTTTGATGGAGATGGAGTCGATGTTTATAGAATGTCAAGTTTTAATGAAGTCACCCACCGAAAAATGATTCATGGTATGCGCA TTAAAGATGGAAAAGCAGCATATGTCCGTCGTTTTGTGAGGACATCAAGACTTAAACAAGAAGAGTTTTTTGGAGGTGCCAAATTTATGAAGGTTGGAGA CCTCAAAGGGCTTTTTGGATTACTTATGGTTAACATGCAAATGCTTCGAGCAAAAACAAAAGTATTGGACATGTCATATGGAAATGGGACTGGTAATACA AATCTCATTTATCACCATGGAAAACTTTTGGCACTTCAAGAGGCTGATAAACCCTATGTGGTTAAAGTTATGGAAGATGGAGATCTGCAAACTATTGGCC TGTTGGATTATGAAAAAAGACTAAAACATTCTTTCACTGCTCATCCAAAGGTGGATCCATTCACTGGAGAGATGTTTACCTTTGGCTATTCACATGAACC ACCATATGTGACATACAGAGTCATTTCAAAGGATGGTGTCATGCATGACCCTGTACCAATAACTATATCAGAACCCATAATGATGCATGACTTTGCAATT ACAGAGAACTATGCAATTTTTATGGATCTTCCTTTGTACTTCCGACCGAAGGAAATGGTGAAAGAAAAGAAGCTCATATTCACATTTGATGCAACAAAAA AAGCTCGTTTTGGTGTCCTTCCACGATATGCAAAGGATGACCTCCTAATCAAATGGTTTGAGCTTCCAAATTGCTTCATATTCCACAATGCCAATGCCTG GGAGGAGGAGGATGAAATTGTTTTAATCACTTGCCGCGTTCAAAATCCAGATTTGGACATGGTCAGTGGGGATGTCAAAGAAAAGCTTGAGAATTTTTCA AATGAGCTGTATGAGATGAGATTCAATATGAAAAGTGGTGTAGCTTCACAAAAGAAACTATCAGAATCTGCAGTTGATTTTCCCAGGGTGAATGAGAGTT ACACTGGGAGGAAACAAAGATATGTGTACGGGACAATTCTAGACAGCATTGCAAAGGTTACAGGGGTTGTTAAATTTGATCTACATGCAGAGCCTGAACC AGGAAAAGGAAAGATTGAGGTTGGAGGAAATGTCAAAGGCATCTTTGACCTTGGTCCTGGTAGATTTGGTTCAGAGGCTGTATTTGTCCCTAGTAAGCCA GGCACCACTTCCGAGGAAGATGATGGCTACCTGATATTCTTCGCACATGATGAAAGTACCGGAAAATCATCAGTGAATGTGATTGATGCAAAAACCATGT CAGCTGATCCTGTTGCAGTTGTTGAGTTACCCCACAGAGTTCCATATGGGTTCCATGCCTTCTTTGTGTCAGAGGAACAACTTCAAGAACAGGCAAAACT GTAA
AA sequence Show only first row Show all	>Potri.009G060500.10 pacid=42772898 polypeptide=Potri.009G060500.10.p locus=Potri.009G060500 ID=Potri.009G060500.10.v4.1 annot-version=v4.1 MAEKSQVEKKQEIGVGAGSTVVEVNPKPQKGLTSKLIDYLEKLIVKLMYDTSQSHHYLSGNFAPVPDETPPVKDLPVKGYLPDCLNGEFVRVGPNPKLVP VAGYHWFDGDGVDVYRMSSFNEVTHRKMIHGMRIKDGKAAYVRRFVRTSRLKQEEFFGGAKFMKVGDLKGLFGLLMVNMQMLRAKTKVLDMSYGNGTGNT NLIYHHGKLLALQEADKPYVVKVMEDGDLQTIGLLDYEKRLKHSFTAHPKVDPFTGEMFTFGYSHEPPYVTYRVISKDGVMHDPVPITISEPIMMHDFAI TENYAIFMDLPLYFRPKEMVKEKKLIFTFDATKKARFGVLPRYAKDDLLIKWFELPNCFIFHNANAWEEEDEIVLITCRVQNPDLDMVSGDVKEKLENFS NELYEMRFNMKSGVASQKKLSESAVDFPRVNESYTGRKQRYVYGTILDSIAKVTGVVKFDLHAEPEPGKGKIEVGGNVKGIFDLGPGRFGSEAVFVPSKP GTTSEEDDGYLIFFAHDESTGKSSVNVIDAKTMSADPVAVVELPHRVPYGFHAFFVSEEQLQEQAKL

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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.009G060500 [exp]	0	1	CCD1.5
AT1G64860		SIGB, SIG2, SIG...	RNApolymerase sigma subunit 2,...		Potri.019G043300 [exp]	1.00	0.9878	RPOD1.1
AT2G28800		ABL3, ALB3	ALBINO 3, 63 kDa inner membran...		Potri.009G029100 [exp]	2.44	0.9798	ALB3.1
AT2G28800		ABL3, ALB3	ALBINO 3, 63 kDa inner membran...		Potri.001G237800 [exp]	2.44	0.9866	ALB3.2
AT2G04842		EMB2761	EMBRYO DEFECTIVE 2761, threony...		Potri.014G162200 [exp]	5.19	0.9757
AT1G68830		STN7	STT7 homolog STN7 (.1)		Potri.008G116800 [exp]	5.91	0.9770
AT3G46610			Pentatricopeptide repeat (PPR-...		Potri.017G070800 [exp]	6.48	0.9767
AT2G35660		CTF2B, CTF2A	FAD/NAD(P)-binding oxidoreduct...		Potri.001G152600 [exp]	6.48	0.9739	Pt-CTF2.2
AT3G07670			Rubisco methyltransferase fami...		Potri.014G169300 [exp]	8.48	0.9758
AT5G26742		EMB1138	embryo defective 1138, DEAD bo...		Potri.005G000100 [exp]	8.48	0.9769
AT3G09310			unknown protein		Potri.016G099700 [exp]	8.94	0.9733

Compare expression of checked genes

Potri.009G060500 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.