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 AT4G19170 803 / 0 CCD4, NCED4 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) AT1G30100 375 / 1e-122 ATNCED5, NCED5 nine-cis-epoxycarotenoid dioxygenase 5 (.1) AT3G63520 357 / 2e-116 ATNCED1, ATCCD1, CCD1 carotenoid cleavage dioxygenase 1 (.1) AT4G18350 355 / 6e-115 ATNCED2, NCED2 nine-cis-epoxycarotenoid dioxygenase 2 (.1) AT3G14440 353 / 5e-114 SIS7, ATNCED3, STO1, NCED3 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) AT1G78390 348 / 1e-111 ATNCED9, NCED9 nine-cis-epoxycarotenoid dioxygenase 9 (.1) AT3G24220 326 / 7e-104 ATNCED6, NCED6 nine-cis-epoxycarotenoid dioxygenase 6 (.1) AT4G32810 89 / 3e-18 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.005G069100 [exp] 1084 / 0 AT4G19170 812 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.009G151900 [exp] 557 / 0 AT4G19170 548 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.009G152300 [exp] 551 / 0 AT4G19170 539 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.009G152200 [exp] 550 / 0 AT4G19170 546 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Potri.001G393800 [exp] 364 / 2e-118 AT3G14440 883 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Potri.011G112400 [exp] 357 / 1e-115 AT3G14440 868 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Potri.011G084100 [exp] 346 / 2e-111 AT1G30100 799 / 0.0 nine-cis-epoxycarotenoid dioxygenase 5 (.1) Potri.001G265400 [exp] 340 / 1e-109 AT3G63520 908 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Potri.001G265900 [exp] 335 / 1e-107 AT3G63520 880 / 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 Lus10035696 [exp] 818 / 0 AT4G19170 813 / 0.0 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10019710 [exp] 348 / 1e-112 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10029513 [exp] 345 / 3e-109 AT3G63520 901 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10016410 [exp] 340 / 4e-105 AT3G63520 842 / 0.0 carotenoid cleavage dioxygenase 1 (.1) Lus10023673 [exp] 322 / 6e-102 AT3G24220 706 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10008443 [exp] 313 / 1e-101 AT4G19170 315 / 1e-102 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10037286 [exp] 276 / 3e-90 AT4G19170 263 / 9e-86 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.1) Lus10011750 [exp] 280 / 3e-86 AT3G24220 657 / 0.0 nine-cis-epoxycarotenoid dioxygenase 6 (.1) Lus10026185 [exp] 275 / 1e-84 AT3G14440 682 / 0.0 SALT TOLERANT 1, SUGAR INSENSITIVE 7, nine-cis-epoxycarotenoid dioxygenase 3 (.1) Lus10035700 [exp] 224 / 3e-69 AT4G19170 227 / 9e-71 carotenoid cleavage dioxygenase 4, nine-cis-epoxycarotenoid dioxygenase 4 (.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.019G093400.1 pacid=42774190 polypeptide=Potri.019G093400.1.p locus=Potri.019G093400 ID=Potri.019G093400.1.v4.1 annot-version=v4.1 ATGGATGCCTCATCGTCCTCTTTCCTCTCTGCAATACAAACTTCAAAGCTCCTCACCGGTACCATGGCAATGACCATTCCTAAATCTGCTGTCACAACCA CACCATCATTTCTATCTCGTCATCTTCCTTCCCTCAATGTATCATCAGTTAGAATTGAAGAGAAACCCCAGAACTCAACTACAAGACCTACCACCAGCCG AACTTCACGCCCTGCATCATCAACAACAACCTTGCCTGCTGCAACAAAACCAACACCATCAACAAGGAAATCTCCTGCAAATGATAGACGAGTTGTAGAG CCAAACCAGCCCACCATGATGTTTAATGTATTGGAAGGCGTCATCAACAACTTCATAGACCCTCCGCTTCGGCAATCAGTTGATCCTAGATATGTACTTA GTGATAACTTTGCTCCAGTTGATGAACTTCCTCCAACTGAGTGTGAGGTAATCCATGGATCTCTACCATCATGCCTTGATGGTGCATACATCCGCAATGG CCCTAATCCTCAGTACCTCCCTCGAGGACCTTACCATTTATTTGATGGTGATGGCATGCTTCACTCCATCAGGATCTCCCAGGGGAAAGCCACTCTCTGC AGTCGCTACGTCAAGACTTACAAATATACCATGGAGCGTGATGCTGGGGCTCCACTTCTTCCAAATGTGTTCTCTGGATTCAATGGACTAGCTGCCTCCG CAGCTCGCGGTGCTCTCTCTGCTGCTCGAATTCTGGCTGGTCAATTTAATCCAGCTAATGGTATTGGTCTGGCAAACACTAGCTTGGCTTATTTTGGCAA CCGACTCTACGCCCTTGGCGAGTCGGATCTACCTTATGCTGTGCGTTTGACATCAAATGGAGACATAGAGACGCTGGGTCGTCATGATTTTGATAGAAAG CTGCTGATGAGCATGACTGCTCACCCCAAGGTAGACTTGGAGACAGGGGAGGCCTTCGCTTTCAGATATGGTCCCGTCCCTCCATTTCTAACGTACTTTC ACTTCGATGGAAATGGAAATAAACAACCAGATGTGCCCATATTTTCCATGACGAGACCTTCTTTCCTCCATGACTTTGGAATTAGCAGCAAATATGCTAT ATTTGCCGACATACAGATTGGGATGAACCCCATGGAAATGATATTTGGAGGGGGCTCACCTGTGGGTTCGGACCCAGCAAAAGTATCCAGGCTTGGAATC ATCCCTCGATACGCAACGGATGAGTCAGAGATGAAATGGTTCGATGTGCCAGGGTTCAACATCATACACGCTATCAACGCATGGGATGAGGAGGATGCCG TAGTCATATTAGCACCAAACATTTTATCAGTAGAACACACACTGGAGCGAATGGACCTAATCCATGCCTTGGTTGAGAAAGTGAGAATAGACTTGAAAAC AGGCATAGTTACAAGAAACCCGGTTTCAGCTAGAAACCTGGACTTTGGTGTGATTAACCCAGCTTATTTAGGGAAAAAGAACAGATTCGTGTACGCAGCA ATTGGTGACCCTATGCCAAAGATATCAGGGGTGGTGAAGCTGGATGTGTCCAAAGGAGAGCGGCAGGAATGCACGGTGGCTAGCAGGATATTTGGGCCAA GATGCTATGGTGGTGAGCCTTTCTTTGTAGCAAGGGAGCCTGAGAATCCAGAGGCAGAGGAAGATGACGGGTACGTGGTGTCATATGTTCATGATGAGAC AGCAGGAGAGTCCAAGTTCTTGGTGATGGATGCAAAATCACCAGGGCTTGATATTGTGGCTGCCGTAAGGTTACCTCGGCGGGTTCCTTACGGCTTCCAT GGACTTTTTGTGAAGGAAAGTGACCTGAAAAAGCTCTAG
AA sequence Show only first row Show all	>Potri.019G093400.1 pacid=42774190 polypeptide=Potri.019G093400.1.p locus=Potri.019G093400 ID=Potri.019G093400.1.v4.1 annot-version=v4.1 MDASSSSFLSAIQTSKLLTGTMAMTIPKSAVTTTPSFLSRHLPSLNVSSVRIEEKPQNSTTRPTTSRTSRPASSTTTLPAATKPTPSTRKSPANDRRVVE PNQPTMMFNVLEGVINNFIDPPLRQSVDPRYVLSDNFAPVDELPPTECEVIHGSLPSCLDGAYIRNGPNPQYLPRGPYHLFDGDGMLHSIRISQGKATLC SRYVKTYKYTMERDAGAPLLPNVFSGFNGLAASAARGALSAARILAGQFNPANGIGLANTSLAYFGNRLYALGESDLPYAVRLTSNGDIETLGRHDFDRK LLMSMTAHPKVDLETGEAFAFRYGPVPPFLTYFHFDGNGNKQPDVPIFSMTRPSFLHDFGISSKYAIFADIQIGMNPMEMIFGGGSPVGSDPAKVSRLGI IPRYATDESEMKWFDVPGFNIIHAINAWDEEDAVVILAPNILSVEHTLERMDLIHALVEKVRIDLKTGIVTRNPVSARNLDFGVINPAYLGKKNRFVYAA IGDPMPKISGVVKLDVSKGERQECTVASRIFGPRCYGGEPFFVAREPENPEAEEDDGYVVSYVHDETAGESKFLVMDAKSPGLDIVAAVRLPRRVPYGFH GLFVKESDLKKL

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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
AT4G19170		CCD4, NCED4	carotenoid cleavage dioxygenas...		Potri.019G093400 [exp]	0	1
AT5G05280			RING/U-box superfamily protein...		Potri.019G130100 [exp]	2.44	0.9649
AT5G62840			Phosphoglycerate mutase family...		Potri.015G074700 [exp]	6.92	0.9564
AT1G35420			alpha/beta-Hydrolases superfam...		Potri.019G079000 [exp]	8.66	0.9563
AT1G51100			unknown protein		Potri.011G132900 [exp]	9.21	0.9521
AT5G02860			Pentatricopeptide repeat (PPR)...		Potri.001G297300 [exp]	9.48	0.9369
AT5G17790		VAR3	VARIEGATED 3, zinc finger (Ran...		Potri.013G067200 [exp]	9.59	0.9558
AT5G54770		THI4, TZ, THI1	THIAZOLE REQUIRING, THIAMINE4,...		Potri.011G025200 [exp]	10.39	0.9451
					Potri.017G079000 [exp]	12.96	0.9319
AT5G42310			Pentatricopeptide repeat (PPR-...		Potri.002G010900 [exp]	13.07	0.9362
AT3G23070		ATCFM3A	CRM family member 3A (.1)		Potri.010G077100 [exp]	13.19	0.9521

Compare expression of checked genes

Potri.019G093400 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.