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 AT5G40390 1147 / 0 RS5, SIP1 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) AT4G01970 702 / 0 RS4, ATSTS raffinose synthase 4, stachyose synthase (.1) AT3G57520 557 / 0 RS2, ATSIP2 raffinose synthase 2, seed imbibition 2 (.1.2.3) AT5G20250 550 / 0 RS6, DIN10 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) AT1G55740 518 / 8e-174 RS1, ATSIP1 raffinose synthase 1, seed imbibition 1 (.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.017G036700 [exp] 1439 / 0 AT5G40390 1118 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Potri.004G207900 [exp] 1368 / 0 AT5G40390 1145 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Potri.T124908 [exp] 1194 / 0 AT5G40390 1055 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Potri.014G118400 [exp] 741 / 0 AT4G01970 1087 / 0.0 raffinose synthase 4, stachyose synthase (.1) Potri.006G052800 [exp] 537 / 0 AT3G57520 1290 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Potri.011G166700 [exp] 536 / 0 AT1G55740 1154 / 0.0 raffinose synthase 1, seed imbibition 1 (.1) Potri.006G065700 [exp] 535 / 5e-179 AT5G20250 1154 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Potri.018G126400 [exp] 535 / 6e-179 AT5G20250 1218 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Potri.016G002300 [exp] 527 / 2e-176 AT3G57520 758 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10027679 [exp] 1111 / 0 AT5G40390 1040 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10022240 [exp] 815 / 0 AT5G40390 744 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10017516 [exp] 561 / 0 AT5G20250 1145 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Lus10007537 [exp] 551 / 0 AT3G57520 1235 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Lus10022241 [exp] 400 / 2e-134 AT5G40390 342 / 2e-112 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10008771 [exp] 365 / 5e-122 AT5G40390 339 / 1e-112 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10041370 [exp] 73 / 1e-14 AT5G40390 71 / 8e-15 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10039945 [exp] 0 / 1 AT5G40390 164 / 8e-58 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10039946 [exp] 0 / 1 AT5G40390 123 / 9e-38 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0058 [poplar] [flax] Glyco_hydro_tim PF05691 [poplar] [flax] Raffinose_syn Raffinose synthase or seed imbibition protein Sip1
Representative CDS sequence Show only first row Show all	>Potri.007G123400.1 pacid=42766498 polypeptide=Potri.007G123400.1.p locus=Potri.007G123400 ID=Potri.007G123400.1.v4.1 annot-version=v4.1 ATGGGATCGAGCCTAAGCAAATCTAGTTCTAGTGCTTCAGGGCTGGTTGATGGCAATAGCAAGTCTTTGATATCTCTTGAGGGATCAAACTTTGCTGCCA ATGGCCACATCTTTCTCTCTGATGTCCCAGATAACATTACCCTCTCTCCCTCCCTTTGTACTGAAAAATCAATATCCTCTGGTGCCGGATCCTTTGTGGG GTTTGACTCGAAAGAATCCAAAGACAGGCATGTTGTCCCTATTGGGAAACTGAGGAACATAAAGTTCGCGAGCATATTCAGGTTCAAGGTTTGGTGGACA ACCCACTGGGTTGGCTCCAATGGAAGAGATCTTGAACATGAGACTCAAATGGTCATGCTTGACAAGTCTGATGATTCAGGCCGACCCTACGTTCTCCTTC TTCCTCTTCTTGAAGGGCCTTTCCGAGCTTCTCTCCAGCCGGGCGACGACGACAACGTTGATGTTTGTGTGGAAAGTGGGTCCACAAAAGTTTGTGGAGC CGGATTCCGGAGTGTTGTTTACATGCATGCAGGTGATGATCCATACAATCTGGTGAAGGAGGCCATGAAGGTGGTGAGGATGCATCTGGGTACTTTCAAG CTTCTGGAGGAGAAAACTCCTCCCGGTATAGTGGATAAGTTTGGTTGGTGCACATGGGATGCATTCTATCTTACCGTGCACCCTCAAGGTATCTGGGAAG GTGTCAAGGGTCTTGTTGAAGGTGGGTGCCCACCTGGTCTTGTGTTGATTGATGATGGCTGGCAATCCATTAGTCATGATGAAGACCCCATCACAAAAGA AGGCATGAATGCTACTGTTGCAGGTGAACAGATGCCTTGCCGACTATTGAAGTTCGAAGAGAATTACAAATTCAGGGACTATGCCAGTCCTAAGAGTTTG GCAAATGGTGCCACCGAGAAAGGCATGGGGGCTTTTATCAAGGATTTGAAGGAAGAATTTAACAGTGTGGACTATGTTTATGTGTGGCATGCCTTCTGTG GCTATTGGGGTGGGCTAAGGCCTAATGTCCCTGGTTTGCCTCCAGCACAAGTTGTTCAGCCAAAATTGTCGCCGGGATTGGAGATGACGATGAAGGATCT GGCTGTCGATAAGATTCTGAGCACCGGCGTCGGGCTGGTGCCGCCGGAGATTGTAGATCAGATGTACGAAGGACTTCATTCACACTTGGAGAAGGTTGGG ATTGACGGTGTCAAGGTGGACGTTATTCATTTGATGGAAATGGTGTGTGAAAACTATGGTGGCAGAGTAGACCTGGCTAAGGCATATTTCAAGGCATTGA CAGCCTCTGTGAGGAAGCATTTCAAAGGAAATGGTGTCATAGCTAGCATGCAACACTGCAACGATTTCATGTTCCTTGGAACAGAGGCCATCTCTCTTGG TCGTGTTGGTGATGATTTTTGGTGTACAGATCCATCTGGTGATCCTAATGGCACATTTTGGCTTCAAGGATGCCATATGGTGCACTGTGCTTATAACAGC CTATGGATGGGCAACTTCATCCATCCAGATTGGGATATGTTCCAGTCTACTCATCCCTGTGCTGAATTCCATGCCGCTTCTAGGGCGATTTCTGGAGGTC CAATTTATGTCAGTGATGCTGTAGGGAAGCACAACTTTCCGTTGCTCAAGAGGCTGGTGTTGCCCGACGGTTCAATTCTCCGGTGTGAGTACCATGCACT TCCAACCAGGGATTGCCTCTTTGAGGATCCTCTGCATGATGGCAATACCATGCTCAAGATTTGGAACCTCAACAAGTTTACTGGAGTTGTCGGAGCATTT AACTGCCAAGGAGGAGGATGGTGCCGTGAGACAAGACGCAACCAATGTGCATCCCAATTTTCTCACCTGGTGACTGCTAAGACCAACCCTCGAGACATTG AATGGAGCAGTGGCAAGAACCCAGTTTCCATCGAAGGAGTACAGATGTTTGCAATGTACCTGTCCCAGTCTAAGAAGTTGGTTCTCTCCAAGCCAGACGA GAACATTGAAATTGCACTGGAGCCGTTCAATTTTGAGCTTATTACAGTGTCCCCAGTCACCATCCTAGCTGGAAAATCAGTCCATTTTGCTCCTATAGGT TTGGTGAACATGCTCAACACTGGCGGTGCTATCCAGTCACTGGCTTATACTGATGATGCCAAGAGCACAGTCCGGATTGGCATCAAGGGAAGCGGAGAAA TGAGGGTCTTTGCTTCAGAGAAACCAAGAGCTTGCAAAATTGATGGAAGAGAGGTTGCTTTTGAGTATGAAGAACACATGATTACCACTCAAGTGCCATG GTCTTCTCTATCTGGCCTATCTATTGTTGAATATTTATTTTAG
AA sequence Show only first row Show all	>Potri.007G123400.1 pacid=42766498 polypeptide=Potri.007G123400.1.p locus=Potri.007G123400 ID=Potri.007G123400.1.v4.1 annot-version=v4.1 MGSSLSKSSSSASGLVDGNSKSLISLEGSNFAANGHIFLSDVPDNITLSPSLCTEKSISSGAGSFVGFDSKESKDRHVVPIGKLRNIKFASIFRFKVWWT THWVGSNGRDLEHETQMVMLDKSDDSGRPYVLLLPLLEGPFRASLQPGDDDNVDVCVESGSTKVCGAGFRSVVYMHAGDDPYNLVKEAMKVVRMHLGTFK LLEEKTPPGIVDKFGWCTWDAFYLTVHPQGIWEGVKGLVEGGCPPGLVLIDDGWQSISHDEDPITKEGMNATVAGEQMPCRLLKFEENYKFRDYASPKSL ANGATEKGMGAFIKDLKEEFNSVDYVYVWHAFCGYWGGLRPNVPGLPPAQVVQPKLSPGLEMTMKDLAVDKILSTGVGLVPPEIVDQMYEGLHSHLEKVG IDGVKVDVIHLMEMVCENYGGRVDLAKAYFKALTASVRKHFKGNGVIASMQHCNDFMFLGTEAISLGRVGDDFWCTDPSGDPNGTFWLQGCHMVHCAYNS LWMGNFIHPDWDMFQSTHPCAEFHAASRAISGGPIYVSDAVGKHNFPLLKRLVLPDGSILRCEYHALPTRDCLFEDPLHDGNTMLKIWNLNKFTGVVGAF NCQGGGWCRETRRNQCASQFSHLVTAKTNPRDIEWSSGKNPVSIEGVQMFAMYLSQSKKLVLSKPDENIEIALEPFNFELITVSPVTILAGKSVHFAPIG LVNMLNTGGAIQSLAYTDDAKSTVRIGIKGSGEMRVFASEKPRACKIDGREVAFEYEEHMITTQVPWSSLSGLSIVEYLF

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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
AT5G40390		RS5, SIP1	seed imbibition 1-like, raffin...		Potri.007G123400 [exp]	0	1
AT3G18670			Ankyrin repeat family protein ...		Potri.011G019200 [exp]	1.00	0.9134
AT3G14470			NB-ARC domain-containing disea...		Potri.004G076700 [exp]	3.16	0.7619
					Potri.004G011801 [exp]	4.47	0.8264
AT5G54860			Major facilitator superfamily ...		Potri.011G137300 [exp]	6.92	0.7607
AT4G27190			NB-ARC domain-containing disea...		Potri.006G273200 [exp]	8.83	0.7332	Pt-RGA-II24.65
AT5G06850			C2 calcium/lipid-binding plant...		Potri.009G065600 [exp]	21.28	0.7987
AT3G50140			Plant protein of unknown funct...		Potri.010G144200 [exp]	22.97	0.7274
AT5G39660	DOF	CDF2, AtDof5. 2	cycling DOF factor 2 (.1.2)		Potri.019G040700 [exp]	32.17	0.6804
					Potri.003G152100 [exp]	34.64	0.7315
					Potri.001G302201 [exp]	37.41	0.7492

Compare expression of checked genes

Potri.007G123400 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.