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 AT1G55580 398 / 4e-136 GRAS SCL18, LAS SCARECROW-LIKE 18, Lateral Suppressor, GRAS family transcription factor (.1) AT3G03450 221 / 3e-66 GRAS RGL2 RGA-like 2 (.1) AT1G63100 216 / 1e-63 GRAS GRAS family transcription factor (.1) AT5G17490 207 / 3e-61 GRAS AtRGL3, RGL3 RGA-like protein 3 (.1) AT1G66350 207 / 3e-61 GRAS RGL1 RGA-like 1 (.1) AT5G41920 198 / 4e-59 GRAS GRAS family transcription factor (.1) AT1G14920 196 / 4e-57 GRAS RGA2, GAI RESTORATION ON GROWTH ON AMMONIA 2, GIBBERELLIC ACID INSENSITIVE, GRAS family transcription factor family protein (.1) AT3G54220 198 / 5e-57 GRAS SGR1, SCR SHOOT GRAVITROPISM 1, SCARECROW, GRAS family transcription factor (.1) AT2G01570 195 / 4e-56 GRAS RGA1 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family protein (.1) AT5G48150 192 / 6e-56 GRAS PAT1 phytochrome a signal transduction 1, GRAS family transcription factor (.1.2)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.012G020200 [exp] 727 / 0 AT1G55580 415 / 8e-143 SCARECROW-LIKE 18, Lateral Suppressor, GRAS family transcription factor (.1) Potri.001G473200 [exp] 652 / 0 AT1G55580 405 / 4e-139 SCARECROW-LIKE 18, Lateral Suppressor, GRAS family transcription factor (.1) Potri.001G326000 [exp] 259 / 2e-79 AT1G66350 296 / 2e-92 RGA-like 1 (.1) Potri.005G095100 [exp] 234 / 2e-71 AT1G66350 252 / 3e-77 RGA-like 1 (.1) Potri.001G109400 [exp] 228 / 9e-68 AT1G63100 711 / 0.0 GRAS family transcription factor (.1) Potri.003G122400 [exp] 225 / 7e-67 AT1G63100 696 / 0.0 GRAS family transcription factor (.1) Potri.012G093900 [exp] 219 / 5e-66 AT1G66350 257 / 2e-79 RGA-like 1 (.1) Potri.015G091200 [exp] 218 / 2e-65 AT1G66350 256 / 4e-79 RGA-like 1 (.1) Potri.017G125200 [exp] 216 / 7e-64 AT2G01570 701 / 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 Lus10027123 [exp] 372 / 4e-126 AT1G55580 298 / 5e-97 SCARECROW-LIKE 18, Lateral Suppressor, GRAS family transcription factor (.1) Lus10032882 [exp] 371 / 1e-125 AT1G55580 294 / 2e-95 SCARECROW-LIKE 18, Lateral Suppressor, GRAS family transcription factor (.1) Lus10012554 [exp] 265 / 1e-80 AT1G66350 318 / 1e-99 RGA-like 1 (.1) Lus10041540 [exp] 262 / 2e-80 AT1G66350 317 / 2e-100 RGA-like 1 (.1) Lus10024014 [exp] 210 / 9e-62 AT5G66770 590 / 0.0 GRAS family transcription factor (.1) Lus10006322 [exp] 207 / 3e-61 AT1G63100 588 / 0.0 GRAS family transcription factor (.1) Lus10017626 [exp] 209 / 4e-61 AT2G01570 679 / 0.0 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family protein (.1) Lus10033583 [exp] 208 / 4e-61 AT2G01570 681 / 0.0 REPRESSOR OF GA1-3 1, REPRESSOR OF GA, GRAS family transcription factor family protein (.1) Lus10022418 [exp] 202 / 3e-60 AT1G50420 592 / 0.0 scarecrow-like 3 (.1) Lus10037055 [exp] 204 / 4e-60 AT1G66350 258 / 5e-80 RGA-like 1 (.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.015G008300.1 pacid=42776520 polypeptide=Potri.015G008300.1.p locus=Potri.015G008300 ID=Potri.015G008300.1.v4.1 annot-version=v4.1 ATGCTTGGCTCACAGTTGCAGTCACAGTCACAGCTCATGAGTTCATCTACTTCCCATGTTCAAGGTCAAGAAGAAGAGATTCCGCGGCCACAAACAGCAT TTCAATTGCGTCAATTGCTAGTCACTTGTGCAGACCTCATCACTCAATCTGACTACTCAGCCGCGAAACGCCTCCTCTCCATTTTGTCCTCCAACTCTTC TCCTTATGGTGACTCTATTGAGAGGTTGGTTTATCAATTCGTTCGAGCCCTTTCTCTCCGCCTCGATCGCCATGGCATCCCCACTAGTCCTGCTCCTGCT CCTCATGTTTTCAATATCAACAACATAGTTCATACTTCTCCTCCTTGTGGTACTAATAATAAGATGTTGAACAGCTATGATTCGGATCAGGAGACTCTTC GGTCTTGCTATTTGTCCTTGAATCAGATCACCCCATTCATAAGATTCAGCCATCTAACAGCCAATCAGGCTATCTTGGAAGCCGTACAAGGAGGGCAGCA AGCCATTCACATCATAGACTTTGATATCATGCATGGGGTGCAATGGCCTCCATTGATGCAAGCTTTAGCTGATCGACCCAACAACACTCTCCATCCTCCT CCTATGCTTCGAATCACTGGAACTGGACATGATTTGAACATTCTACACAGGACTGGAGACCGCCTTTTGAAATTTGCTCAGTCCTTGGGCCTCAGGTTCC AATTCCATCCTCTTCTTCTTCTCAACAATGACCCTACCACTCTTGCCCTCTATCTCCCTTCAGCAATTACTCTTCTCCCAGATGAAGCCCTAGCCGTGAA CTGCGTGTTGTATCTTCACAGGTTCCTTAAGGATGATTCTCGCGAACTCCTCCTTTTTCTCCATAAAATCAAGGCCTTGAACCCTAAGGTGGTGACTGTT GCTGAAAGGGAAGCCAACCACAACCAGCCTCTCTTCTTGCAGAGATTCCTGGAGGCCTTGGATCACTACAAAGCTCTCTTTGACTCCCTAGAGGCAACCC TCCCACCAAACAACAGGGAGAGACTGGCAGTTGAGCAGATATGGTTTGGGAGAGAGATATTGGACATAGTAGCAGCAGAGGGAGAAGGAAGAAGAGAAAG GCACCAGAAGTTTGAGACTTGGGAAATGATGCTGAAGAGTGTAGGGTTTAACAAAGTTCCATTGAGTCCCTTTGCACTTTCGCAGGCCAAGCTCTTGCTA AGGCTCCATTATCCTTCAGAGGGTTATCAGCTTCAGATTCTCAAAAATTCTTTCTTCTTAGGTTGGCAGAATCATTCCCTCTTCTCTATCTCTTCCTGGC ACTAG
AA sequence Show only first row Show all	>Potri.015G008300.1 pacid=42776520 polypeptide=Potri.015G008300.1.p locus=Potri.015G008300 ID=Potri.015G008300.1.v4.1 annot-version=v4.1 MLGSQLQSQSQLMSSSTSHVQGQEEEIPRPQTAFQLRQLLVTCADLITQSDYSAAKRLLSILSSNSSPYGDSIERLVYQFVRALSLRLDRHGIPTSPAPA PHVFNINNIVHTSPPCGTNNKMLNSYDSDQETLRSCYLSLNQITPFIRFSHLTANQAILEAVQGGQQAIHIIDFDIMHGVQWPPLMQALADRPNNTLHPP PMLRITGTGHDLNILHRTGDRLLKFAQSLGLRFQFHPLLLLNNDPTTLALYLPSAITLLPDEALAVNCVLYLHRFLKDDSRELLLFLHKIKALNPKVVTV AEREANHNQPLFLQRFLEALDHYKALFDSLEATLPPNNRERLAVEQIWFGREILDIVAAEGEGRRERHQKFETWEMMLKSVGFNKVPLSPFALSQAKLLL RLHYPSEGYQLQILKNSFFLGWQNHSLFSISSWH

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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
AT1G55580	GRAS	SCL18, LAS	SCARECROW-LIKE 18, Lateral Sup...		Potri.015G008300 [exp]	0	1
AT1G55580	GRAS	SCL18, LAS	SCARECROW-LIKE 18, Lateral Sup...		Potri.001G473200 [exp]	1.00	0.9751
AT3G43920		DCL3, ATDCL3	dicer-like 3 (.1.2.3)		Potri.006G218850 [exp]	2.44	0.9342
AT1G55580	GRAS	SCL18, LAS	SCARECROW-LIKE 18, Lateral Sup...		Potri.012G020200 [exp]	2.82	0.9249	Pt-LAS.3
					Potri.007G088800 [exp]	4.00	0.9399
AT4G32870			Polyketide cyclase/dehydrase a...		Potri.008G063900 [exp]	5.47	0.8826
					Potri.019G032401 [exp]	6.78	0.8645
AT1G11260		ATSTP1, STP1	sugar transporter 1 (.1)		Potri.004G101950 [exp]	7.34	0.8942
AT2G42610		LSH10	LIGHT SENSITIVE HYPOCOTYLS 10,...		Potri.014G142400 [exp]	7.48	0.8999
AT1G13680			PLC-like phosphodiesterases su...		Potri.004G117500 [exp]	8.66	0.9241
AT1G64660		ATMGL	methionine gamma-lyase (.1)		Potri.003G146600 [exp]	9.89	0.9170

Compare expression of checked genes

Potri.015G008300 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.