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 AT1G03100 1044 / 0 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT4G17616 253 / 9e-74 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G69290 226 / 7e-64 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G68980 197 / 8e-54 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G09650 152 / 3e-38 CRM3, HCF152 HIGH CHLOROPHYLL FLUORESCENCE 152, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12620 86 / 3e-17 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT5G04810 86 / 5e-17 pentatricopeptide (PPR) repeat-containing protein (.1) AT3G53700 84 / 2e-16 MEE40 maternal effect embryo arrest 40, Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12300 81 / 1e-15 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G12775 80 / 4e-15 Pentatricopeptide repeat (PPR) superfamily protein (.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.003G084400 [exp] 312 / 2e-95 AT4G17616 676 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.008G095800 [exp] 231 / 1e-65 AT1G69290 860 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.016G085300 [exp] 152 / 4e-38 AT3G09650 961 / 0.0 HIGH CHLOROPHYLL FLUORESCENCE 152, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Potri.008G017400 [exp] 94 / 3e-19 AT5G04810 1278 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Potri.010G241300 [exp] 92 / 8e-19 AT5G04810 1230 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Potri.010G217600 [exp] 82 / 6e-16 AT2G16880 677 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.004G205600 [exp] 82 / 7e-16 AT2G17140 1150 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G046200 [exp] 79 / 5e-15 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046000 [exp] 79 / 7e-15 AT1G63130 405 / 9e-133 Tetratricopeptide repeat (TPR)-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 Lus10007353 [exp] 1093 / 0 AT1G03100 1003 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10020775 [exp] 1058 / 0 AT1G03100 961 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10037275 [exp] 290 / 3e-87 AT4G17616 560 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10037077 [exp] 215 / 6e-60 AT1G69290 827 / 0.0 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10015059 [exp] 179 / 1e-46 AT3G09650 969 / 0.0 HIGH CHLOROPHYLL FLUORESCENCE 152, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10036908 [exp] 110 / 2e-25 AT1G69290 365 / 1e-120 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10035686 [exp] 100 / 1e-22 AT4G17616 176 / 2e-50 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10043434 [exp] 90 / 4e-18 AT5G04810 1108 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10034149 [exp] 87 / 3e-17 AT5G04810 1157 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1) Lus10008650 [exp] 85 / 1e-16 AT5G12100 702 / 0.0 pentatricopeptide (PPR) repeat-containing protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF01535 [poplar] [flax] PPR PPR repeat CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family CL0020 [poplar] [flax] TPR PF13812 [poplar] [flax] PPR_3 Pentatricopeptide repeat domain
Representative CDS sequence Show only first row Show all	>Potri.005G212400.2 pacid=42803024 polypeptide=Potri.005G212400.2.p locus=Potri.005G212400 ID=Potri.005G212400.2.v4.1 annot-version=v4.1 ATGCTATCTACCAGGAAATTGAAGCGACAAGTCGTTGTGTTGTCCCCTAGAGTTTTATTTTCCTTACTTTCTGATAGTGGACATGAGACTACTCGGGTTT CCAGATGCCGGATGCTAGTTTCTTGGAGCAGCAGGCCTGTCAATGAGTTTCTTGAGTCCTCTTTGACCAACCTAAATGGTCCAACTGTTGTTGTAGGAAT CCAGGGTGGGTTCAATCATCAAAGCCATTCCTTTTCAACTCTGGCTGGAACAATTTTGGTCCAGGCTCGAGACCCAGCTAAATTATGTATGGAAATAGAG AATGCAATCGATGAGCATAGATTTAATGATGCATGGAAGTTATTTGAACAGCATTTGCATATGGATGGGTTTCCTCGAAAGTCCATTGTGAATAAGCTTC TAACAAGTTATTCTGCAAGCCTTGATGTTCCATGGCTTGAGAAGGCATATGGCTTGGTAGAACAGGCTATTGAGGAAAGCAAGCAGAATCTGCTGGAGAA AGAGCCTTTGATCTATCTCTCTTTTGTTCTTGCTAAATGTGGTTTGCCAGTTCCAGCATCAACGGTCCTGAGAAAGTTGATACAAATGGAACAATATCCT CCGGTGACTGCGTGGTCTGCAATCTTGGCTCATATGTCACTAACAGCTCCTGGTGCTTACCTAGCTGCTGAGCTGATACTTGAGATAGGTTACTTGTTTC AAGATGGTAGGGTGGACCCACGTAAAAAGATTAATGCACCTTTGATTGCCATGAAGCCTAATACTATTGCTATGAACATTGCTTTGACTGGATGTCTCTT GTTTGGAACAACTAGAAAAGCAGAGCAGCTTCTTGACATGATGCCTCGAATTGGCATCAGAGCCGACACAAATTTATTGATCATAATGGCACATATATAT GAGAGGAATGGGAGAAGAGAAGAACTTCGAAAACTTCAGAGACATATAGATGATTCCCAAAGTTTAACCGATACGCAATTTCGGCAGTTCTATAATTGTT TACTAACATGCCACTTGAAATTTGGGGATCTCGATGCTGCTTCCAACATGGTTTTGATAATGCTTCGGAAAGCAAGGGAAGCACGGAATTCATTTGCTAC GGCTGCACTGCTGTTCCCAATTGATAAGAAGTCCTCTCCAGGCCCAGTTTCTGAGAAAAGTTTGAGCCACAAAGAATCAGGTGGTTTAGGGAACAATAGA TCAAACAAAGATCTTACGATTTCTTATGAAGAGTTCTATAGAGACCGGAATTTCTTGAAACTTGACACTGAGGCAAAGGAAGTCCTCAGTACTCTTTTAG TTGAGTTGCAGATGCAAGTTGAATTGATTACAACTGAACGTGGTATCCTCCAGCCAACTGAAAAAATTTATGTGAAGCTGGTTAAAGCTTTCCTAGAATC CGGCAAGACCAAGGAGTTGGCTGCATTTCTCATCAAGGCAGAGAAAGAAGATTCTCCAGCTTCCAATGACGATTCAGCTTTGGTTCATGTCATCAATTCA TGCATTTCACTTGGGTGGCTAGATCAGGCACATGACCTGCTAGATGAGATGTGTTTGGCTGGGATCAGAACCAGTTCTTCTGTCTATGCTTCACTCTTGA AAGCATATTGTAAAGCAAACCGAACAGGAGAGGTCACTGCACTTCTACGAGATGCACGTAGAGCAGGGATCCAGCTAGACTCGAGTAGTTATAATGCATT GATTGAGTTCCGAGTGATTCAAAAAGATACTAAGGAAGCCCTCCATATTTTTAAGGAGATGAAAGAGGCTAAGATACCTAGAACTGGCCATCAGGAATTT GAGATGTTGGTTAAGGGATGTGCAGAGGGTGGTGAAGCAGGGTTGATGGCAAAGCTTTTGCAGGAAATCAAAGAAGAGCAGGCTGCAGATTCTGGAGTTC ATGATTGGAATAATGTGATCCACTTTTTCTGCAAGAAGAGACTTATGCAAGATGCCGAAAAGGCTTTGAAGAAGATGAGGAGTCTGGGCCATGCCCCAAA TGCTCAAACTTTTCATTCTATGGTGACTGGATACGCTGCCATTGGGGGAAAATATATAGAGGTAACAGAGCTCTGGGGCGAAATGAAATCTATTGCTTCA GCAACGTCGATGAAGTTTGACCAGGAACTACTGGATTCAGTACTTTATACATTTGTGAGAGGTGGATTTTTTTCTCGAGCAAATGAAGTCGTGGATATGA TGGAGAAAGGGAAAATGTTCATTGACAAATACAAGTATCGAACCCTCTACTTGAAGTACCATAAAACACTATACAAGGGAAAAACTCCCAAAATCCAGAC AGAAAGTCTAGTAAAAAAGAGGGAAGCTGCACTGACCTTTAAGAAGTGGTTGGGTCTGAACTGA
AA sequence Show only first row Show all	>Potri.005G212400.2 pacid=42803024 polypeptide=Potri.005G212400.2.p locus=Potri.005G212400 ID=Potri.005G212400.2.v4.1 annot-version=v4.1 MLSTRKLKRQVVVLSPRVLFSLLSDSGHETTRVSRCRMLVSWSSRPVNEFLESSLTNLNGPTVVVGIQGGFNHQSHSFSTLAGTILVQARDPAKLCMEIE NAIDEHRFNDAWKLFEQHLHMDGFPRKSIVNKLLTSYSASLDVPWLEKAYGLVEQAIEESKQNLLEKEPLIYLSFVLAKCGLPVPASTVLRKLIQMEQYP PVTAWSAILAHMSLTAPGAYLAAELILEIGYLFQDGRVDPRKKINAPLIAMKPNTIAMNIALTGCLLFGTTRKAEQLLDMMPRIGIRADTNLLIIMAHIY ERNGRREELRKLQRHIDDSQSLTDTQFRQFYNCLLTCHLKFGDLDAASNMVLIMLRKAREARNSFATAALLFPIDKKSSPGPVSEKSLSHKESGGLGNNR SNKDLTISYEEFYRDRNFLKLDTEAKEVLSTLLVELQMQVELITTERGILQPTEKIYVKLVKAFLESGKTKELAAFLIKAEKEDSPASNDDSALVHVINS CISLGWLDQAHDLLDEMCLAGIRTSSSVYASLLKAYCKANRTGEVTALLRDARRAGIQLDSSSYNALIEFRVIQKDTKEALHIFKEMKEAKIPRTGHQEF EMLVKGCAEGGEAGLMAKLLQEIKEEQAADSGVHDWNNVIHFFCKKRLMQDAEKALKKMRSLGHAPNAQTFHSMVTGYAAIGGKYIEVTELWGEMKSIAS ATSMKFDQELLDSVLYTFVRGGFFSRANEVVDMMEKGKMFIDKYKYRTLYLKYHKTLYKGKTPKIQTESLVKKREAALTFKKWLGLN

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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
AT1G03100			Pentatricopeptide repeat (PPR)...		Potri.005G212400 [exp]	0	1
AT3G25970			Pentatricopeptide repeat (PPR)...		Potri.007G146800 [exp]	2.44	0.9160
AT1G18485			Pentatricopeptide repeat (PPR)...		Potri.009G067000 [exp]	4.24	0.9039
AT1G50840		PolIA, POLGAMMA...	polymerase I A, polymerase gam...		Potri.011G136900 [exp]	4.24	0.8939
AT1G69350			Tetratricopeptide repeat (TPR)...		Potri.008G093000 [exp]	7.74	0.9098
AT1G16480			Tetratricopeptide repeat (TPR)...		Potri.007G068600 [exp]	9.69	0.9105
AT5G40410			Tetratricopeptide repeat (TPR)...		Potri.002G014800 [exp]	9.79	0.9086
AT1G13410			Tetratricopeptide repeat (TPR)...		Potri.008G121400 [exp]	10.95	0.8959
AT5G04780			Pentatricopeptide repeat (PPR)...		Potri.010G241100 [exp]	11.00	0.8916
AT4G08210			Pentatricopeptide repeat (PPR-...		Potri.002G087400 [exp]	12.24	0.8843
AT1G43760			DNAse I-like superfamily prote...		Potri.002G000402 [exp]	14.14	0.8735

Compare expression of checked genes

Potri.005G212400 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.