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 AT3G43590 141 / 2e-38 zinc knuckle (CCHC-type) family protein (.1) AT5G36240 64 / 6e-12 zinc knuckle (CCHC-type) family protein (.1) AT5G52380 64 / 1e-11 VASCULAR-RELATED NAC-DOMAIN 6 (.1) AT4G36020 58 / 1e-09 CSDP1 cold shock domain protein 1 (.1) AT3G43490 56 / 4e-09 Zinc knuckle (CCHC-type) family protein (.1) AT1G75560 46 / 8e-06 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) AT3G42860 45 / 2e-05 zinc knuckle (CCHC-type) 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.004G193500 [exp] 178 / 2e-51 AT3G43590 299 / 3e-93 zinc knuckle (CCHC-type) family protein (.1) Potri.009G155500 [exp] 171 / 3e-49 AT3G43590 286 / 9e-89 zinc knuckle (CCHC-type) family protein (.1) Potri.015G144600 [exp] 71 / 3e-14 AT5G52380 261 / 2e-87 VASCULAR-RELATED NAC-DOMAIN 6 (.1) Potri.012G141700 [exp] 65 / 4e-12 AT5G52380 250 / 6e-83 VASCULAR-RELATED NAC-DOMAIN 6 (.1) Potri.004G161800 [exp] 51 / 2e-07 AT1G75560 273 / 2e-92 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) Potri.005G234700 [exp] 47 / 3e-06 AT1G75560 278 / 2e-94 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) Potri.007G057100 [exp] 46 / 8e-06 AT4G36020 127 / 3e-35 cold shock domain protein 1 (.1) Potri.010G092600 [exp] 45 / 4e-05 AT5G20220 429 / 5e-149 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) family protein (.2) Potri.005G112800 [exp] 40 / 0.0006 AT2G17870 86 / 1e-19 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.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 Lus10008437 [exp] 159 / 1e-44 AT3G43590 264 / 4e-80 zinc knuckle (CCHC-type) family protein (.1) Lus10013378 [exp] 159 / 8e-44 AT3G43590 256 / 1e-74 zinc knuckle (CCHC-type) family protein (.1) Lus10016232 [exp] 130 / 9e-36 AT3G43590 139 / 6e-37 zinc knuckle (CCHC-type) family protein (.1) Lus10029311 [exp] 129 / 2e-35 AT3G43590 139 / 2e-37 zinc knuckle (CCHC-type) family protein (.1) Lus10039230 [exp] 66 / 3e-12 AT5G52380 261 / 2e-87 VASCULAR-RELATED NAC-DOMAIN 6 (.1) Lus10027475 [exp] 66 / 3e-12 AT5G52380 261 / 1e-87 VASCULAR-RELATED NAC-DOMAIN 6 (.1) Lus10041902 [exp] 44 / 8e-05 AT4G36020 159 / 2e-47 cold shock domain protein 1 (.1) Lus10028449 [exp] 41 / 0.0005 AT4G36020 158 / 3e-47 cold shock domain protein 1 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0511 [poplar] [flax] Retroviral_zf PF00098 [poplar] [flax] zf-CCHC Zinc knuckle
Representative CDS sequence Show only first row Show all	>Potri.016G063800.7 pacid=42810082 polypeptide=Potri.016G063800.7.p locus=Potri.016G063800 ID=Potri.016G063800.7.v4.1 annot-version=v4.1 ATGGTGGAAATGACACAAGCATTAGCAACTACAAATGGGGTCAACTCCTCCATTGCGATTGGTGTCTCTTTGTCTTCTTTGGAAGGTAATATTAGTTTTT GTAGGGGTGTTGCTGAAACAGTACCAGCAGAGACATTCATAGTGAATGCGATGAAGCAGAAGAGGAAGGTAAATGTTGATAGGGCAAGCAAAGAAATGCA GGAAGATACAGCAAAAGGCATGGAAAGAGAACAAGTTGAGTTTACAGACAATATTGTGCTTCGTCAGCTTCTTCGGAGAACAAGGTACTTTGATGGTCCT TCATACAATAGTTGGGAGATGTGCTCCAATTGTGGCCAAGAAGGTCATATGGTATGCCAATGCAAGATGCGGAAGCGGAAAAAGAAGAAACTATGCTTCC TTTGTGAGAGTTTGGATCACATTGGGAGGCGCTGTAGAAAGAATCGATACTGCTCTGTTTGCAAAGGAAGAGGCCACAAAGCCAGATACTGTCCAGAAAG GGACCAAGAAAGATCAAGTCATGGTATTTGCTTACAATGCGGAAATTCAGGGCATGATATGTTTTCATGTACAGCTGACTATTTGCCCAGTGATCTCAAG GAAATTCAGTGTTATGTTTGCAGAAGCTTTGGTCATCTCTGCTGTGCTGACTTTCCAGATACAGATCCAAGAGAGTCATGTGGAGCAACTGGCAGCACAA AAGCCTATACTACATGCTACAAATGTGGAGAGGAAGACCATTTTGCACGAAATTGCAGTAAGCAAGGGAAGGGTGGACAGGGAAGAGAACAGGCGAGCAA TTAG
AA sequence Show only first row Show all	>Potri.016G063800.7 pacid=42810082 polypeptide=Potri.016G063800.7.p locus=Potri.016G063800 ID=Potri.016G063800.7.v4.1 annot-version=v4.1 MVEMTQALATTNGVNSSIAIGVSLSSLEGNISFCRGVAETVPAETFIVNAMKQKRKVNVDRASKEMQEDTAKGMEREQVEFTDNIVLRQLLRRTRYFDGP SYNSWEMCSNCGQEGHMVCQCKMRKRKKKKLCFLCESLDHIGRRCRKNRYCSVCKGRGHKARYCPERDQERSSHGICLQCGNSGHDMFSCTADYLPSDLK EIQCYVCRSFGHLCCADFPDTDPRESCGATGSTKAYTTCYKCGEEDHFARNCSKQGKGGQGREQASN

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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
AT3G43590			zinc knuckle (CCHC-type) famil...		Potri.016G063800 [exp]	0	1
AT4G36980			unknown protein		Potri.007G044100 [exp]	2.44	0.8805
AT1G10890			unknown protein		Potri.001G211000 [exp]	4.47	0.8426
AT5G26610			D111/G-patch domain-containing...		Potri.005G002700 [exp]	6.32	0.7646
AT1G33500			unknown protein		Potri.013G095400 [exp]	7.74	0.8518
AT1G05350			NAD(P)-binding Rossmann-fold s...		Potri.012G097700 [exp]	8.71	0.8436
AT5G55000		FIP2	potassium channel tetramerisat...		Potri.013G062500 [exp]	11.40	0.7466
AT3G20530			Protein kinase superfamily pro...		Potri.004G018500 [exp]	18.73	0.8145
AT1G22460			O-fucosyltransferase family pr...		Potri.002G100400 [exp]	19.18	0.7334
AT1G51130			Nse4, component of Smc5/6 DNA ...		Potri.016G046802 [exp]	24.97	0.7811
AT3G54190			Transducin/WD40 repeat-like su...		Potri.016G142600 [exp]	27.91	0.7629

Compare expression of checked genes

Potri.016G063800 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.