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 AT4G00150 420 / 3e-139 GRAS ATHAM3, SCL6, LOM3 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) AT2G45160 358 / 3e-114 GRAS ATHAM1, LOM1 LOST MERISTEMS 1, ARABIDOPSIS THALIANA HAIRY MERISTEM 1, GRAS family transcription factor (.1) AT3G60630 351 / 7e-112 GRAS ATHAM2, LOM2 LOST MERISTEMS 2, ARABIDOPSIS THALIANA HAIRY MERISTEM 2, GRAS family transcription factor (.1) AT4G36710 179 / 5e-49 GRAS AtHAM4 Arabidopsis thaliana HAIRY MERISTEM 4, GRAS family transcription factor (.1) AT5G66770 129 / 5e-31 GRAS GRAS family transcription factor (.1) AT2G01570 124 / 2e-29 GRAS RGA1 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family protein (.1) AT1G14920 117 / 2e-27 GRAS RGA2, GAI RESTORATION ON GROWTH ON AMMONIA 2, GIBBERELLIC ACID INSENSITIVE, GRAS family transcription factor family protein (.1) AT5G17490 116 / 3e-27 GRAS AtRGL3, RGL3 RGA-like protein 3 (.1) AT3G03450 115 / 8e-27 GRAS RGL2 RGA-like 2 (.1) AT3G50650 114 / 2e-26 GRAS SCL7 GRAS family transcription factor (.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.014G060500 [exp] 1022 / 0 AT4G00150 429 / 8e-143 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Potri.002G144700 [exp] 950 / 0 AT4G00150 437 / 2e-145 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Potri.002G144200 [exp] 901 / 0 AT4G00150 411 / 2e-135 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Potri.001G122800 [exp] 417 / 1e-135 AT4G00150 376 / 1e-121 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Potri.003G110800 [exp] 398 / 4e-128 AT4G00150 366 / 2e-117 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Potri.007G029200 [exp] 184 / 2e-50 AT4G36710 419 / 4e-142 Arabidopsis thaliana HAIRY MERISTEM 4, GRAS family transcription factor (.1) Potri.005G125800 [exp] 175 / 5e-47 AT4G36710 466 / 1e-160 Arabidopsis thaliana HAIRY MERISTEM 4, GRAS family transcription factor (.1) Potri.001G326000 [exp] 129 / 5e-31 AT1G66350 296 / 2e-92 RGA-like 1 (.1) Potri.010G110700 [exp] 123 / 4e-29 AT2G01570 764 / 0.0 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family 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 Lus10004353 [exp] 416 / 2e-135 AT4G00150 390 / 2e-127 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Lus10028934 [exp] 415 / 5e-135 AT4G00150 397 / 7e-130 LOST MERISTEMS 3, ARABIDOPSIS THALIANA HAIRY MERISTEM 3, GRAS family transcription factor (.1) Lus10024029 [exp] 170 / 4e-45 AT4G36710 452 / 4e-155 Arabidopsis thaliana HAIRY MERISTEM 4, GRAS family transcription factor (.1) Lus10041721 [exp] 169 / 1e-44 AT4G36710 456 / 1e-156 Arabidopsis thaliana HAIRY MERISTEM 4, GRAS family transcription factor (.1) Lus10012554 [exp] 130 / 6e-31 AT1G66350 318 / 1e-99 RGA-like 1 (.1) Lus10041540 [exp] 127 / 2e-30 AT1G66350 317 / 2e-100 RGA-like 1 (.1) Lus10024014 [exp] 124 / 1e-29 AT5G66770 590 / 0.0 GRAS family transcription factor (.1) Lus10016496 [exp] 125 / 2e-29 AT3G54220 663 / 0.0 SHOOT GRAVITROPISM 1, SCARECROW, GRAS family transcription factor (.1) Lus10040734 [exp] 122 / 2e-28 AT5G41920 410 / 1e-137 GRAS family transcription factor (.1) Lus10017758 [exp] 119 / 8e-28 AT2G01570 454 / 4e-155 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0063 [poplar] [flax] NADP_Rossmann PF03514 [poplar] [flax] GRAS GRAS domain family
Representative CDS sequence Show only first row Show all	>Potri.014G060200.5 pacid=42764504 polypeptide=Potri.014G060200.5.p locus=Potri.014G060200 ID=Potri.014G060200.5.v4.1 annot-version=v4.1 ATGAAGGCCATGCCCCTACCCTCTGAGGACTTTCAAGGGAAGGGGGTGTTAGATTTCTCTTCGTCTACTACTTCCTCTCCAAATTCACTGTATCAATACC ACCACAAGTGGCAGAACAACAACAGCAAAGAAAGTTGTGGTTTTTTTGTGGGCGGTGCTGAGCCCACATCTGTACTTGACACAATAAGCAGACGAAGCCC ACCAACATCGTCCTCAACACTGTCTTCTTCTCAAGGCGGAGGAGGTGGTGGCGGAGGAGCCTCCACCGACACCACCAACGACGTGGCAGCAGCTGGTGGA AGCATCCCTTGTGTAGATGAAGAATGTGGACAGCAACTTGGAATGGAGGATTGGGAGAGTGTGTTGCCAGGTTCTCCTAGTCAAGAGCAGTCAATTTTAA GGCTAATTATGGGTGATATTGAGGACCCATCCGTGGGACTTAACAAGCTGTTACAAGGTGGAAGTAGGTCTCTAGATATGGAGCATGCATCAGGCTTTGG TGTTGTAGATCAAGTTTTTGGCTTTGATATATCCAATATGAGTTCTGCAAGTGCCAACTTCGTTGCCAACAACAACAACATTGATCCTTCTTCAATCCAT GGGATCAATCTTTTGCCAGGTTTGTTTCAGCAACAGCAGCAGCAGGCAGCATTCGATCAAGATGAGAAGCCGCAGATTTTGAATCCAGGGATGATAAGCA ACCAGAACCAACATCAGTCTGTGCAAAATCCAGCTATGTTTTTGCCATTCTCATATTCACAATTACAAGAGCATCATAATAACCAGCATTTCTCATCACC ACCGCCGTCGAAAAGGCTTAATTCTGGGCTTGTTGGAGTCAATTATGTGCCAAAAGTCTTTGATTCGAGGCCTCCAGAGTTGTTTCTTCCACGACAACAT CAACAACAGCAGCAGAATCATCAGTTTCAAATGTTGCAGCAACAGCAGCAGCAGAGGCAGGGAGTGATCATGAATCAGAAAATTGCAAGCGATGAATTGG CAAACCAGCAGCAGCTTCAACAGGCAATAATAAACCCGATATGTCAAGCAGCAGAGCTGATCGAAAATAGGAATCCGGTACTAGCGCAAGGGATATTGGC GCGGCTCAATCACCAGCTCTCTCTTCCTATCGGTAAGCCTTACCAAAGGACTGCTTTTTACTTCAAGGATGCCTTGCAGTTGCTTCTCCACTCGAGCAGC AACAACTCAATTGATACTGCTTGTAACCTGATTTTCAAGATCGGTGCTTATAAATCTTTCTCTGAGATCTCACCAATCCTCCAGTTTGCGAATTTTACTT GCAACCAAGTTCTTCTCGAGGCTTTTGAGGGGTTCGAGAGAATTCATATTGTTGATTTTGATATTGGATATGGTGGACAATGGGCTTCTCTTATGCAAGA ACTGGCTTTGAAGACTGGAGGTGCCCCTTCTCTTAAAATCACTGCTTTTGCTTCTCCTTCCTCACATGATGAGCTCGAGCTTGGTTTCACTCAAGAAAAT TTAAGAATCTTTGCAAGCGAAATGAACATGCCATTCGAGCTTGAAATTTTAAGCCTTGAATCCTTGGGTTCTGGTTCTTGGCCAATGCCTCCGCGCACAT CGGAAAAGGAAGTAACTGCCGTGAATCTTCCAATTGGCTCCTTTTCAAATGACCCATCAACTCTTCCTCTGGCTCTTCGCTTTGTAAAGCAACTGTCACC CAAAGTTGTGGTCTCTTTGGACAGAGGCTGTGACCGAAGCGACCTCCCATTTGGGCACCATATCAACCATGCCATTCAATCTTATTCAGGCCTGCTGGAA TCACTGGATGCTGTGAATGTGAACTTGGATACATTACAAAAGATTGAGAGGTTTTTGGTCCAACCAGGCATTGAGAAAATTGTTCTGGGTCGTCATCGTT GCCCTGATAGGACTCCTCCTTGGAGGAATCTCTTTTTGCAGTCTGGTTTCACTCCATTGACTTTCAGTAACTTCACCGAGTCACAAGCCGAGTATTTGGT GCAACGTACTCCAGTTAGGGGTTTCCATGTTGAAACGAGACAATCTTCTCTTGTTCTTTGCTGGCAACGGAAGGACCTGATATCGGCTTCTGCTTGGAGG TGTTAA
AA sequence Show only first row Show all	>Potri.014G060200.5 pacid=42764504 polypeptide=Potri.014G060200.5.p locus=Potri.014G060200 ID=Potri.014G060200.5.v4.1 annot-version=v4.1 MKAMPLPSEDFQGKGVLDFSSSTTSSPNSLYQYHHKWQNNNSKESCGFFVGGAEPTSVLDTISRRSPPTSSSTLSSSQGGGGGGGGASTDTTNDVAAAGG SIPCVDEECGQQLGMEDWESVLPGSPSQEQSILRLIMGDIEDPSVGLNKLLQGGSRSLDMEHASGFGVVDQVFGFDISNMSSASANFVANNNNIDPSSIH GINLLPGLFQQQQQQAAFDQDEKPQILNPGMISNQNQHQSVQNPAMFLPFSYSQLQEHHNNQHFSSPPPSKRLNSGLVGVNYVPKVFDSRPPELFLPRQH QQQQQNHQFQMLQQQQQQRQGVIMNQKIASDELANQQQLQQAIINPICQAAELIENRNPVLAQGILARLNHQLSLPIGKPYQRTAFYFKDALQLLLHSSS NNSIDTACNLIFKIGAYKSFSEISPILQFANFTCNQVLLEAFEGFERIHIVDFDIGYGGQWASLMQELALKTGGAPSLKITAFASPSSHDELELGFTQEN LRIFASEMNMPFELEILSLESLGSGSWPMPPRTSEKEVTAVNLPIGSFSNDPSTLPLALRFVKQLSPKVVVSLDRGCDRSDLPFGHHINHAIQSYSGLLE SLDAVNVNLDTLQKIERFLVQPGIEKIVLGRHRCPDRTPPWRNLFLQSGFTPLTFSNFTESQAEYLVQRTPVRGFHVETRQSSLVLCWQRKDLISASAWR C

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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
AT4G00150	GRAS	ATHAM3, SCL6, L...	LOST MERISTEMS 3, ARABIDOPSIS ...		Potri.014G060200 [exp]	0	1
AT4G10790			UBX domain-containing protein ...		Potri.015G080200 [exp]	2.64	0.8838
AT2G03500	GARP		Homeodomain-like superfamily p...		Potri.018G074200 [exp]	4.24	0.8794
AT1G32240	GARP	KAN2, KANADI2	KANADI 2, Homeodomain-like sup...		Potri.003G096300 [exp]	5.19	0.8733
AT1G65780			P-loop containing nucleoside t...		Potri.017G140601 [exp]	7.48	0.8696
AT2G46660		CYP78A6	"cytochrome P450, family 78, s...		Potri.002G175200 [exp]	8.83	0.8607	Pt-CYP78.1
AT3G04030	GARP		Homeodomain-like superfamily p...		Potri.013G060200 [exp]	8.94	0.8669	Pt-MYR1.2
AT5G13520			peptidase M1 family protein (....		Potri.008G045900 [exp]	13.41	0.8007
AT4G00150	GRAS	ATHAM3, SCL6, L...	LOST MERISTEMS 3, ARABIDOPSIS ...		Potri.014G060500 [exp]	13.67	0.8326
AT1G76040		CPK29	calcium-dependent protein kina...		Potri.005G245000 [exp]	13.85	0.8322
AT4G14540	CCAAT	NF-YB3	"nuclear factor Y, subunit B3"...		Potri.005G083400 [exp]	14.31	0.7979

Compare expression of checked genes

Potri.014G060200 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.