Gene [POPLAR] | FIBexDB

External link

JGI Phytozome v13

[genome browser]

Popgenie

AspWood

Symbol

Arabidopsis homologues

Show only best Show top 10

Locus ID	BLAST score/e-value	Alias	TAIR10 short description
AT3G18860	1114 / 0		transducin family protein / WD-40 repeat family protein (.1.2)
AT3G49660	92 / 3e-20	AtWDR5a	human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1)
AT4G02730	87 / 2e-18	AtWDR5b	human WDR5 \(WD40 repeat\) homolog b, Transducin/WD40 repeat-like superfamily protein (.1)
AT5G25150	88 / 8e-18	TAF5	TBP-associated factor 5 (.1)
AT1G49040	84 / 3e-16	SCD1	STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3)
AT5G08390	77 / 2e-14		Transducin/WD40 repeat-like superfamily protein (.1)
AT5G23430	76 / 4e-14		Transducin/WD40 repeat-like superfamily protein (.1.2)
AT1G11160	76 / 7e-14		Transducin/WD40 repeat-like superfamily protein (.1)
AT5G52820	72 / 5e-13		WD-40 repeat family protein / notchless protein, putative (.1)
AT1G48630	70 / 1e-12	RACK1B_AT	receptor for activated C kinase 1B (.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.009G112184 [exp]	1487 / 0	AT3G18860	1128 / 0.0	transducin family protein / WD-40 repeat family protein (.1.2)
Potri.004G150700 [exp]	1353 / 0	AT3G18860	1099 / 0.0	transducin family protein / WD-40 repeat family protein (.1.2)
Potri.007G009500 [exp]	86 / 7e-18	AT3G49660	469 / 4e-168	human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1)
Potri.002G051900 [exp]	84 / 3e-17	AT4G02730	524 / 0.0	human WDR5 \(WD40 repeat\) homolog b, Transducin/WD40 repeat-like superfamily protein (.1)
Potri.015G049500 [exp]	85 / 1e-16	AT1G49040	1810 / 0.0	STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3)
Potri.005G148500 [exp]	81 / 2e-16	AT3G49660	503 / 0.0	human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1)
Potri.018G020200 [exp]	78 / 2e-14	AT5G25150	984 / 0.0	TBP-associated factor 5 (.1)
Potri.006G263400 [exp]	77 / 2e-14	AT5G25150	1018 / 0.0	TBP-associated factor 5 (.1)
Potri.010G255400 [exp]	77 / 4e-14	AT5G08390	927 / 0.0	Transducin/WD40 repeat-like superfamily protein (.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
Lus10040490 [exp]	1129 / 0	AT3G18860	1103 / 0.0	transducin family protein / WD-40 repeat family protein (.1.2)
Lus10011296 [exp]	1113 / 0	AT3G18860	1089 / 0.0	transducin family protein / WD-40 repeat family protein (.1.2)
Lus10006916 [exp]	96 / 4e-21	AT4G02730	506 / 0.0	human WDR5 \(WD40 repeat\) homolog b, Transducin/WD40 repeat-like superfamily protein (.1)
Lus10014674 [exp]	91 / 1e-19	AT4G02730	508 / 0.0	human WDR5 \(WD40 repeat\) homolog b, Transducin/WD40 repeat-like superfamily protein (.1)
Lus10003487 [exp]	88 / 1e-18	AT3G49660	489 / 6e-176	human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1)
Lus10039636 [exp]	85 / 2e-17	AT3G49660	502 / 0.0	human WDR5 \(WD40 repeat\) homolog a, Transducin/WD40 repeat-like superfamily protein (.1)
Lus10040449 [exp]	86 / 7e-17	AT1G49040	1816 / 0.0	STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3)
Lus10023563 [exp]	83 / 6e-16	AT1G49040	1743 / 0.0	STOMATAL CYTOKINESIS-DEFECTIVE 1, stomatal cytokinesis defective / SCD1 protein (SCD1) (.1), stomatal cytokinesis defective / SCD1 protein (SCD1) (.2), stomatal cytokinesis defective / SCD1 protein (SCD1) (.3)
Lus10011224 [exp]	76 / 7e-14	AT1G11160	665 / 0.0	Transducin/WD40 repeat-like superfamily protein (.1)
Lus10001301 [exp]	75 / 2e-13	AT5G16750	1159 / 0.0	TORMOZEMBRYO DEFECTIVE, Transducin family protein / WD-40 repeat family protein (.1)

PFAM info

Clan ID	Clan name	Pfam ID	Pfam name	Pfam description
CL0186 [poplar] [flax]	Beta_propeller	PF00400 [poplar] [flax]	WD40	WD domain, G-beta repeat
CL0186 [poplar] [flax]		PF08324 [poplar] [flax]	PUL	PUL domain
CL0186 [poplar] [flax]		PF09070 [poplar] [flax]	PFU	PFU (PLAA family ubiquitin binding)

Representative CDS sequence

Show only first row Show all

>Potri.T125104.1 pacid=42802268 polypeptide=Potri.T125104.1.p locus=Potri.T125104 ID=Potri.T125104.1.v4.1 annot-version=v4.1

ATGGACATGGAAATCGACTTCAAAAATTATCAACTAAGCCAAGAACTCCGCGGCCACGAAGACGACGTTCGCGGTATTTGTGTTTGCGGAAATGCGGGAA

TAGCGACGTCGTCGAGGGATAAAACGGTGAGGTATTGGGTACCAGACCCGACCGACAAACGCAAGTACGAATCATCGAAAATTCTGTTAGGGCATTCGAG

TTTTGTGGGACCATTGGCATGGATTCCGCCGAACCAGGACTTTGTAGAAGGTGCGATTGTGTCTGGTGGAATGGACACGATGGTGCTTGTTTGGAATTTG

AGTAACGGAGAGAAAGTTCAGAGCTTGAAAGGTCATCATTTGCAAGTCACCGGTGTTGTTTTGGATGGCGAAGATATTGTTTCTTGCTCCGTTGACTGTA

CCTTGAGGAGGTGGAGGAAGGGTCAACTTGTTGAGAATTGGGAGGCTCATAAGTCTGCAATTCAAGCAATTATTAAGCTGCCATCGGGCGAGCTTGTTAC

AGGTTCAACTGACACAACTTTAAAACTTTGGAAAGGGAAGACGTGTTTACACACTTTTGCAGGGCATTCAGATACGGTTCGAGGCTTAGCAGAGATGCAT

GGATTGGGAATTCTTTCTGCATCGCATGATGGCTCCATCAGATTATGGGCTTTAACTGGCGAAGTATTAATGGAGATGGTTGGTCATGCTTCAATTGTCT

ATTCAGTTGATTCGCATGTATCTGGACTTATTGTTAGTGGTAGTGAAGATTGTTCAGCAAAGATTTGGAAAGATGGAGCCTGTATTCAGAGTATAGAGCA

TCCTGGTTGTGTGTGGGATGTCAAATTCTTGGAAAATGGTGATATTGTGACAGCATGCTCAGATGGAGCAGTACGTATTTGGACTTCATATCAGGAGAGA

ATTGCAGAACCAGCAGACCTTGACTCTTATGTCTCCCAACTTTCTCAATACAAGATAAGCAGGAAGAGGGTTGGGGGATTGAAATTGGAAGATTTACCAG

GCCTTGAGGCTTTGCAGATTCCAGGAACCACTGATGGCCAGACCAAAGTCATCAGAGAAGGGGACAATGGTGTAGCATATGCTTGGAATTTGAGAGAACA

GAAGTGGGATAAAATTGGAGAAGTTGTTGATGGACCAGAAGATGGCATGAAGCGTCCCGTTCTTGATGGATTTGAATATGATTACGTATTTGATGTTGAT

ATTGGTGATGGTGAGCCGATTCGCAAGTTGCCATACAATCGATCAGATAATCCATATGACACTGCTGACAAGTGGCTTCTCAAGGAGAATCTTCCTCTTG

CCTATCGTCAACAGATTGTAGAGTTTATACTCCAAAATTCTGGACAGGGGGGAGTTGCACTTGATTCATCATTCCGTGACCCGTTCACTGGCGCAAATGC

TTATATACCCGGAGGATCTTCTAGCATGTCTGTTGTTTCAGCAAAACCTACTTTCAAACATATTCCCAAGAAAGGAATGCTTGTTTTTGACGTGGCTCAG

TTTGATGGGATCCTGAAAAAGATCACAGAGTTCCACAATTCTCTTTTATCTGATCCTGTCAAAAAGGACCTGTCTTTGTCAGAGCTTGAGATATCAAGAT

TGGGTGCAGTTATTAAAATTTTAAAGGACACATCACATTACCATACAAGTAGATTTGCAGATGCTGACATTGCTTTGCTGCTGAAATTGCTAAAATCTTG

GCCACTGGCAATGATATTTCCAGTTATTGATATTCTGAGGATGCTTGTTCTACACCCAGATGGGGCGACTGTACTTCTCAAGCATGTTGAAGATGAAAAT

GATATCCTGATGGAAATGATCAAGAGAGTTACAACAAATCCTCCACTTCCGCCAAACCTTTTAACGGGCATCCGTGCTGTGACTAATCTATTCAAGAATT

TACCCTACCATACCTGGCTTCAAAAGCACCAGAGTGAGATTCTTGATGTTTTTTCAAGCTGTTATTCATCTCCCAATAAGAACTTGCAGTTGTCTTATGC

TACCATGATACTCAATTACGCCGTGCTGTTGATTGAAAAGAAAGATCTTGAAGGCCAATCTCAAGTTCTTACAGCAGCTATTGCGATTGCAGAAGGGGAA

AATATTGAAGTTGATTCAAAATTCCGGGCTTTAGTTGCTGTTGGATCACTGATGCTTGATGGTCTGGTGAAAAGAATTGCATTGGACTTTGATGTTGAGA

ATGTTGCGAAAACAGCCAAAGCTTCTAAAGAAACGAAGATTGCTGAAGTTGGAGCTGACATTGAACTGCTAACAAAACAGAAGTGA

AA sequence

Show only first row Show all

>Potri.T125104.1 pacid=42802268 polypeptide=Potri.T125104.1.p locus=Potri.T125104 ID=Potri.T125104.1.v4.1 annot-version=v4.1

MDMEIDFKNYQLSQELRGHEDDVRGICVCGNAGIATSSRDKTVRYWVPDPTDKRKYESSKILLGHSSFVGPLAWIPPNQDFVEGAIVSGGMDTMVLVWNL

SNGEKVQSLKGHHLQVTGVVLDGEDIVSCSVDCTLRRWRKGQLVENWEAHKSAIQAIIKLPSGELVTGSTDTTLKLWKGKTCLHTFAGHSDTVRGLAEMH

GLGILSASHDGSIRLWALTGEVLMEMVGHASIVYSVDSHVSGLIVSGSEDCSAKIWKDGACIQSIEHPGCVWDVKFLENGDIVTACSDGAVRIWTSYQER

IAEPADLDSYVSQLSQYKISRKRVGGLKLEDLPGLEALQIPGTTDGQTKVIREGDNGVAYAWNLREQKWDKIGEVVDGPEDGMKRPVLDGFEYDYVFDVD

IGDGEPIRKLPYNRSDNPYDTADKWLLKENLPLAYRQQIVEFILQNSGQGGVALDSSFRDPFTGANAYIPGGSSSMSVVSAKPTFKHIPKKGMLVFDVAQ

FDGILKKITEFHNSLLSDPVKKDLSLSELEISRLGAVIKILKDTSHYHTSRFADADIALLLKLLKSWPLAMIFPVIDILRMLVLHPDGATVLLKHVEDEN

DILMEMIKRVTTNPPLPPNLLTGIRAVTNLFKNLPYHTWLQKHQSEILDVFSSCYSSPNKNLQLSYATMILNYAVLLIEKKDLEGQSQVLTAAIAIAEGE

NIEVDSKFRALVAVGSLMLDGLVKRIALDFDVENVAKTAKASKETKIAEVGADIELLTKQK

DESeq2's median of ratios [POPLAR]

Coexpressed genes

Download tab-delimited text

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.T125104 [exp]	0	1

Potri.T125104 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.T125104 [POPLAR]

DESeq2's median of ratios [POPLAR]

Coexpressed genes

Potri.T125104 coexpression network