Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol	Pt-RBR1.1
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT3G12280 1377 / 0 RB1, RBL1, RBR1, ATRBR1 RETINOBLASTOMA 1, RETINOBLASTOMA-RELATED PROTEIN 1, retinoblastoma-related 1 (.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
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10008667 [exp] 1509 / 0 AT3G12280 1311 / 0.0 RETINOBLASTOMA 1, RETINOBLASTOMA-RELATED PROTEIN 1, retinoblastoma-related 1 (.1.2) Lus10026154 [exp] 1442 / 0 AT3G12280 1247 / 0.0 RETINOBLASTOMA 1, RETINOBLASTOMA-RELATED PROTEIN 1, retinoblastoma-related 1 (.1.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0065 [poplar] [flax] Cyclin PF01857 [poplar] [flax] RB_B Retinoblastoma-associated protein B domain CL0065 [poplar] [flax] Cyclin PF01858 [poplar] [flax] RB_A Retinoblastoma-associated protein A domain CL0065 [poplar] [flax] Cyclin PF11934 [poplar] [flax] DUF3452 Domain of unknown function (DUF3452)
Representative CDS sequence Show only first row Show all	>Potri.001G031400.2 pacid=42788244 polypeptide=Potri.001G031400.2.p locus=Potri.001G031400 ID=Potri.001G031400.2.v4.1 annot-version=v4.1 ATGAGTCCAGCTGCTCTGAAGAATATGGAAGAAAACAAAACTACAGTTATGACAACCAGTCATTCAAGTAATGATGGAGGGGAAACTGTGAAAGGGTATA GTGATGCGGTTGAAGTTCGATTTTCTGACTTTTGCAAGAGTGGATTAGCATTGGATGAGAACACTTGTACACAGGCTATTAAGCTTTTCAAAGACACGAA ACATCTTTTGATGACAAATGTTTCATCTATTGGGAATGGCACGTCGGAAGAAGCAGAGAGGTTTTGGTTTGCATTTGTTTCGTACTCTGTTAAGAGGTTG AGCGAGAAGAATAGAGATGATGCACAGCAGAAGTCTGATGATCCTGGGCTTACTTTATGCCAAATATTGAGATTAGCAAAGCTGAACATCGTGGACTTCT TTAAAGAGCTACCCCATTTTATTGTCAAGGCTGGTCCAATCTTAAGCAATATATATGGTGCAGACTGGGAGAACAGACTTGAGGCAAAGGAGCTGCAAGC CAATTTTGTGCACTTGAGCATTTTAAGCAGGCACTACAAGCGTGCATGCAGGGAACTTTTCTTGACAAGTGATGCAAGTTCTGATAAACAGCCAGCAATA TCCAATGAAGCAACACATGTATCAGACCACCACCGTTTTGGGTGGTTGCTGTTTCTGGCTCTCCGGGTGCATGCATTCAGCCGTTTTAAAGATCTGGTCA CTTGCACAAATGGTCTGGTTTCTGTACTGGCTGTTCTGATTATACATGTTCCAGTTCGCTTCAGAAATTTTAGTTTCAATGACTCTCAATGGTTTGTTAG GAAAGGAGACAAAGGTGTCGATTTGCTCGCTTCACTCTGCAATAAATATGACACCTCAGAAGAAGTGTTGAGGAAATCGATGGAAACTACCAATAATTTA ATAGCCAATATCTTGAAGAAGAAGCCCCATTCGGCCTCTGAGTATAAAAATGAAAACCTAGTGAATATCAACCCAGATGGTTTGATCTATTATGAAGATT TGATGGAGGAATCATCCCTGCAATCCAGTTTGAATATTCTAGAGAAGGATTATGATGATGCAATTCGTAACAAGGCTGAACTGGACGAGAGGGTGTTTAT TAACGAGGAGGACAGCTTACTTGGTTCAGGGAGCGTATCTGCAGGTTCCTTGAATATAACTGGTGCCAAGAGAAAATTTGATTTAATATCCTCACCAACA AAGACAATCACAAGTCCACTATCTCCTCATCGTTCTCCTGCATCTCATGCAAATGGAATTCCTGGTAGTGCAAACTCGAAGATGGCAGCCACACCTGTAA GCACTGCAATGACAACTGCAAAGTGGCTTCGGACCATCATTTCCCCACTTCCATCAAAACCCTCAGCACAGTTGGAGCGCTTCCTGGTGTCATGTGATAA GGATGTAACTAATGATGTCATTCGTAGAGCACAGATAATATTGGAGGCTATATTTCCAAGTAGTTCTCTTGGAGAACGCTGTGTGAATGGAAGTCTGCAA AGTACAAACCTAATGGACAACATATGGGCAGAACAAAGAAGATTGGAGGCACTCAAGTTATATTACAGGGTTTTGGAATCAATGTGCACAGCAGAGGCCC AAATACTGCATGCAACTAACTTGACCTCTTTATTAACTAATGAGAGGTTCCATAGATGCATGCTAGCGTGTTCTGCTGAGCTAGTTGTGGCAACTTATAA GACAGTGACAATGTTGTTTCCTGCAGTTTTGGAGAGAACAGGCATTACAGCTTTTGATCTTAGCAAGGTTATAGAGAGTTTCATTAGGCATGAGGAGTCC CTCCCACGGGAGTTGAGACGGCATTTGAATTCCTTGGAAGAGCGACTTTTGGATAGCATGGTGTGGGAAAAAGGATCCTCACTCTACAATTCTTTGACAG TTGCAAGACCGGCTCTTTCTGCAGAGATAAATCGACTTGGATTATTAGCAGAACCAATGCCATCATTGGATGCAATTGCCATGCATATTAATTTTTCATC TGGATGCTTGCCTCCTGTGCCTTCTTTGCAAAAGCATGAGACTTCTCCAGGATCAGGTCAGAATGGAGATCTCAGGTCTCCAAAGAGACCTTGCACAGAC TTCCGAAGTGTGTTGGTAGAGCGAAATTCCTTCACATCACCAGTGAAAGACCGCCTATTGGGTAATCTTAAATCAAAGCTACCACCTCCTCCTTTGCAGT CTGCCTTTGCCAGTCCAACACGTCCAAACCCTGGAGGAGGAGGGGAAACATGTGCAGAAACTGGGATCAATGTATTTTTTACGAAGATTAATAAGTTGGC TGCTGTCAGAATTAATGGTATGATTGAAAAGCTACAACCGTCTCAGCAGCATATTAGAGAAAATGTCTATCGTCTTTTTCAACTTATACTAAGCCACCAG ACATCTCTCTTCTTCAACCGTCATATTGACCAGATCATTCTTTGCTGTTTCTATGGAGTTGCAAAGATTTCTAAATTGAATCTGACCTTCAGGGAAATTA TATACAATTATAGGAGGCAGCCACATTGTAAAACACTAGTTTTCCGCAGTGTGTTTGTGGATTGGTCATCTGCACGCCATAATGGGAGAACGGGGCAGGA TCATGTGGATATTATTACGTTTTACAATGAAATTTTTATCCCGGCTGCAAAGCCTTTGCTGGTGGATGTTGGTTCTGCTGGAACAACTGTGAAAGCCAGT AATGTTCCTGAAGTTGGTAATAATAAAGATGGTCAATGTCCTGCATCACCTAAAGTATCACCTTTTCCAAGTCTCCCTGATATGTCTCCTAAGAAAGTAT CGTCAGCGCATAATGTGTATGTCTCTCCATTGCGGTCATCCAAGATGGATGCTTTAATCTCAAATAGCTCAAAAAGCTATTATGCTTGTGTTGGAGAGAG CACCCATGCTTACCAGAGCCCTTCAAAAGACCTAAATGCTATCAATAACCGCCTGAACGGTAACCGGAAGGCCAGAGGAACCCTCAACTTGGATAATGAT GTTGGGTTGGTTAGTGATTCTATGGTGGCCAACAGCCTCGGCCTTCAAAATGGGAATTGTGCATCTACATCGGGTGCAGCTTTGAAATCTGAGCAGTCTG ACTCCTAA
AA sequence Show only first row Show all	>Potri.001G031400.2 pacid=42788244 polypeptide=Potri.001G031400.2.p locus=Potri.001G031400 ID=Potri.001G031400.2.v4.1 annot-version=v4.1 MSPAALKNMEENKTTVMTTSHSSNDGGETVKGYSDAVEVRFSDFCKSGLALDENTCTQAIKLFKDTKHLLMTNVSSIGNGTSEEAERFWFAFVSYSVKRL SEKNRDDAQQKSDDPGLTLCQILRLAKLNIVDFFKELPHFIVKAGPILSNIYGADWENRLEAKELQANFVHLSILSRHYKRACRELFLTSDASSDKQPAI SNEATHVSDHHRFGWLLFLALRVHAFSRFKDLVTCTNGLVSVLAVLIIHVPVRFRNFSFNDSQWFVRKGDKGVDLLASLCNKYDTSEEVLRKSMETTNNL IANILKKKPHSASEYKNENLVNINPDGLIYYEDLMEESSLQSSLNILEKDYDDAIRNKAELDERVFINEEDSLLGSGSVSAGSLNITGAKRKFDLISSPT KTITSPLSPHRSPASHANGIPGSANSKMAATPVSTAMTTAKWLRTIISPLPSKPSAQLERFLVSCDKDVTNDVIRRAQIILEAIFPSSSLGERCVNGSLQ STNLMDNIWAEQRRLEALKLYYRVLESMCTAEAQILHATNLTSLLTNERFHRCMLACSAELVVATYKTVTMLFPAVLERTGITAFDLSKVIESFIRHEES LPRELRRHLNSLEERLLDSMVWEKGSSLYNSLTVARPALSAEINRLGLLAEPMPSLDAIAMHINFSSGCLPPVPSLQKHETSPGSGQNGDLRSPKRPCTD FRSVLVERNSFTSPVKDRLLGNLKSKLPPPPLQSAFASPTRPNPGGGGETCAETGINVFFTKINKLAAVRINGMIEKLQPSQQHIRENVYRLFQLILSHQ TSLFFNRHIDQIILCCFYGVAKISKLNLTFREIIYNYRRQPHCKTLVFRSVFVDWSSARHNGRTGQDHVDIITFYNEIFIPAAKPLLVDVGSAGTTVKAS NVPEVGNNKDGQCPASPKVSPFPSLPDMSPKKVSSAHNVYVSPLRSSKMDALISNSSKSYYACVGESTHAYQSPSKDLNAINNRLNGNRKARGTLNLDND VGLVSDSMVANSLGLQNGNCASTSGAALKSEQSDS

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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
AT3G12280		RB1, RBL1, RBR1...	RETINOBLASTOMA 1, RETINOBLASTO...		Potri.001G031400 [exp]	0	1	Pt-RBR1.1
AT5G49980		AFB5	auxin F-box protein 5 (.1)		Potri.005G159300 [exp]	2.64	0.7993
AT1G50410			SNF2 domain-containing protein...		Potri.007G000700 [exp]	4.47	0.8427
AT3G03380		DEG7, DEGP7	degradation of periplasmic pro...		Potri.017G128300 [exp]	11.31	0.8227
AT3G22170	FAR1_related	FHY3	far-red elongated hypocotyls 3...		Potri.006G020700 [exp]	11.74	0.8333	Pt-FHY3.2
AT5G11530		EMF1	embryonic flower 1 (EMF1) (.1)		Potri.018G039500 [exp]	13.96	0.8184
AT5G07400	FHA		forkhead-associated domain-con...		Potri.012G111800 [exp]	20.19	0.8111
AT5G53620			unknown protein		Potri.015G006700 [exp]	27.83	0.7755
AT3G13300		VCS	VARICOSE, Transducin/WD40 repe...		Potri.016G002100 [exp]	32.40	0.7672
AT1G27595			unknown protein		Potri.002G107400 [exp]	32.44	0.7973
AT2G27230	bHLH	LHW, bHLH156	LONESOME HIGHWAY, transcriptio...		Potri.009G017700 [exp]	33.22	0.7415

Compare expression of checked genes

Potri.001G031400 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.