Gene [POPLAR] | FIBexDB

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JGI Phytozome v13

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Popgenie

AspWood

Symbol

Arabidopsis homologues

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Locus ID	BLAST score/e-value	Alias	TAIR10 short description
AT5G13920	116 / 7e-28		GRF zinc finger / Zinc knuckle protein (.1)
AT3G42860	87 / 2e-18		zinc knuckle (CCHC-type) family protein (.1)
AT1G54930	72 / 2e-13		GRF zinc finger / Zinc knuckle protein (.1)
AT5G63920	54 / 4e-07	TOP3A, AtTOP3alpha	topoisomerase 3alpha (.1)

Paralogs

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Gene ID	BLAST score/e-value	At best hit	BLAST score/e-value	TAIR10 short description
Potri.009G112676 [exp]	1040 / 0	AT5G13920	116 / 7e-28	GRF zinc finger / Zinc knuckle protein (.1)
Potri.T125504 [exp]	538 / 0	AT5G13920	106 / 1e-25	GRF zinc finger / Zinc knuckle protein (.1)
Potri.001G318100 [exp]	81 / 2e-16	AT3G42860	211 / 8e-66	zinc knuckle (CCHC-type) family protein (.1)
Potri.009G094001 [exp]	50 / 5e-07	AT3G42860	44 / 3e-05	zinc knuckle (CCHC-type) family protein (.1)
Potri.005G067100 [exp]	47 / 3e-05	AT5G63920	1389 / 0.0	topoisomerase 3alpha (.1)

Flax homologues

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Locus ID	BLAST score/e-value	At best hit	BLAST score/e-value	TAIR10 short description
Lus10030560 [exp]	80 / 1e-15	AT3G42860	258 / 1e-82	zinc knuckle (CCHC-type) family protein (.1)
Lus10012906 [exp]	45 / 5e-08	AT3G42860	184 / 1e-54	zinc knuckle (CCHC-type) family protein (.1)
Lus10004959 [exp]	51 / 3e-06	AT5G63920	1136 / 0.0	topoisomerase 3alpha (.1)
Lus10014888 [exp]	44 / 6e-05	ND	39 / 7e-04
Lus10025368 [exp]	43 / 0.0001	AT3G42860	44 / 1e-05	zinc knuckle (CCHC-type) family protein (.1)
Lus10011629 [exp]	42 / 0.0002	ND	39 / 6e-04
Lus10012985 [exp]	41 / 0.0003	AT3G42860	41 / 5e-05	zinc knuckle (CCHC-type) family protein (.1)
Lus10020975 [exp]	41 / 0.0007	AT5G13920	42 / 5e-05	GRF zinc finger / Zinc knuckle protein (.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
CL0167 [poplar] [flax]	Zn_Beta_Ribbon	PF06839 [poplar] [flax]	zf-GRF	GRF zinc finger

Representative CDS sequence

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>Potri.T125604.1 pacid=42802281 polypeptide=Potri.T125604.1.p locus=Potri.T125604 ID=Potri.T125604.1.v4.1 annot-version=v4.1

ATGGCGTGTGGGAGCCACGAGTGTCATGTTAGCGATCCAATTTCCTCAACTCCACCACAAGCATCACCCTCTGCTTCCCCATCTCCTCAAAGGAACCCTA

AAGAGCATGATCAATGCTTTATGTGCAAAAGGCTTGGCCACTGGTCCAAAGATTGTCCCAACAAAACCCCCCGAAAATCACTGGCCTTAAGCCCTGGATC

ATCCTCCTCGACTTCAGTGCAGGTTCCTGATCTTCCAGTGGTTCGATGCCCTTGTGGTGGGGGCACTTGTAGAGTTTCAACTTCGAACACCGTTAAAAAT

CCTGGCAGAAAGTTCTATGCTTGCCCTGTTGATCATAGAACATCGGGTAGTTGCGGATTCTTCAAATGGAGTGACGACATTGCTGCTAGATTTAAACCCC

CTATGTGTCCATGTGGTGCCGGGTCATGCAGTTTAAATATCGTATCAAGTGGTCCAGACAGAGGCCGATGGTATTTTGCTTGCCGGATTAAGAAGAACCA

TGGAGCTTGTAAATTTTTGCAGTGGGCAGATTCTGAAGGGAATAACATGCAGAATATGCAAGGAGATGAAAACAAGGGATACCCTGCCCGTCGGTCCTGG

TTGACTGTAAACAATGAACAGTGCACGGAAGACAATAAGAGTTCTGATATTGAGTTGGAGTCAACAATGGTGAAGAGTGTTGATAATTATCCAATTTCAT

CCATGGATCCACCTATCAGAAAAGATGAGGTCCTTGTTAGGGACCTGGTCATGCAGGACTCCGAGTCTTGCGAAATTGTGTCAGGGACAGCACTTGAAGT

CCCACCACCAATACCCAAGCCTGAGATTCCTTGCCAAGAACCAGAGTTCTCTTTGCAAATTTCTAATGCAAGGGACACAAAAATTGAAGGCACTTCTCCT

TTTGATCCTGTTATAGAAGATGTGGGTGATATTGAAGCCCTGGCTCTCTTAGCAGGCAGTTCATCAAATGATGATGAAAGTGATATACAGCAAGGTCCAT

TTCTACAATCTCCTAGAGAGGATGCTGAGCATCCAAATGGTATTTTTCAGGAGCCTTCAGGGATGCAAACTGTGGTGGAGAACAGTGATACATCAAAGTT

AGCCTTGAAAACGTTTGGGCAAGTTTTGCTCGACATTCTGCAGTCTATGGATCAGACTCAGCATGAAACAATGTTGAAGGTGGCAGAAAACACTTTTGAT

TCTTTGCGCCATCTCTCAATTGACTATGCATCTTTTTCCAAGGCTGTGAGGGAATACATTGAATGCAAATCAAAACTGGCTGGAATTGAGGAGTCCATGG

GCGCAGACTCTTCTTCAGAAGAATTCCTTGGCCATTACAATGATAAGAAAACCCAGTTTGACAACATCTCTCAGCGCCATGTGGAGGCAGTATCTGCTTA

TGAAGCTTCCGAAAACCACCTCCAATCACTTCGCCTAGAAGTTACACGTGTCAAAAACATGCTTCTTCAACTGGAGAAACAATTGACTTACTGTGAGGCT

GAGACTTTGAGGTGCAAGTCTTGTGTTACTGAAATTTCTAACCATAAGTCAGAATCAGAGAGAAGCTTGGATGCTGCATGTGAGAAAATGGAAGAAGCTT

TGAAACTTGAAGACGAGAGGGATTCATTGGTATATGCAGCAAATGCAGCATTAGAGAATGCAAGGGTTCAGCTTCTTCAGTGA

AA sequence

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>Potri.T125604.1 pacid=42802281 polypeptide=Potri.T125604.1.p locus=Potri.T125604 ID=Potri.T125604.1.v4.1 annot-version=v4.1

MACGSHECHVSDPISSTPPQASPSASPSPQRNPKEHDQCFMCKRLGHWSKDCPNKTPRKSLALSPGSSSSTSVQVPDLPVVRCPCGGGTCRVSTSNTVKN

PGRKFYACPVDHRTSGSCGFFKWSDDIAARFKPPMCPCGAGSCSLNIVSSGPDRGRWYFACRIKKNHGACKFLQWADSEGNNMQNMQGDENKGYPARRSW

LTVNNEQCTEDNKSSDIELESTMVKSVDNYPISSMDPPIRKDEVLVRDLVMQDSESCEIVSGTALEVPPPIPKPEIPCQEPEFSLQISNARDTKIEGTSP

FDPVIEDVGDIEALALLAGSSSNDDESDIQQGPFLQSPREDAEHPNGIFQEPSGMQTVVENSDTSKLALKTFGQVLLDILQSMDQTQHETMLKVAENTFD

SLRHLSIDYASFSKAVREYIECKSKLAGIEESMGADSSSEEFLGHYNDKKTQFDNISQRHVEAVSAYEASENHLQSLRLEVTRVKNMLLQLEKQLTYCEA

ETLRCKSCVTEISNHKSESERSLDAACEKMEEALKLEDERDSLVYAANAALENARVQLLQ

DESeq2's median of ratios [POPLAR]

Coexpressed genes

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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
					Potri.T125604 [exp]	0	1

Potri.T125604 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.

Plant FIBer expression Database

Potri.T125604 [POPLAR]

DESeq2's median of ratios [POPLAR]

Coexpressed genes

Potri.T125604 coexpression network