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 AT1G12700 512 / 5e-174 RPF1 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) AT1G62930 484 / 9e-165 RPF3 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT3G22470 484 / 1e-164 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G63130 479 / 9e-163 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G62590 477 / 7e-162 pentatricopeptide (PPR) repeat-containing protein (.1) AT1G62910 474 / 8e-161 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G12300 474 / 2e-160 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) AT1G63080 471 / 2e-159 Pentatricopeptide repeat (PPR) superfamily protein (.1) AT1G62670 470 / 3e-159 RPF2 rna processing factor 2 (.1) AT1G63330 464 / 6e-158 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.013G032600 [exp] 999 / 0 AT1G12700 493 / 2e-166 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.013G034400 [exp] 959 / 0 AT3G22470 476 / 1e-161 Pentatricopeptide repeat (PPR) superfamily protein (.1) Potri.005G050180 [exp] 805 / 0 AT1G12700 488 / 2e-164 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046200 [exp] 799 / 0 AT1G12700 501 / 5e-170 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050400 [exp] 795 / 0 AT1G12700 504 / 3e-171 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G046100 [exp] 786 / 0 AT1G12700 512 / 1e-173 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050500 [exp] 785 / 0 AT1G12700 523 / 2e-178 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050300 [exp] 779 / 0 AT1G12700 466 / 5e-156 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Potri.005G050240 [exp] 764 / 0 AT1G12700 465 / 1e-155 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.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 Lus10014245 [exp] 506 / 1e-173 AT1G12700 427 / 5e-141 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10008593 [exp] 484 / 4e-165 AT1G12700 400 / 7e-131 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10029737 [exp] 482 / 8e-163 AT1G63130 424 / 6e-140 Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10014244 [exp] 476 / 9e-162 AT1G12700 397 / 7e-130 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10042768 [exp] 473 / 2e-159 AT1G12700 418 / 8e-138 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10003433 [exp] 454 / 4e-153 AT1G12700 396 / 2e-129 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10022861 [exp] 418 / 2e-139 AT1G12700 370 / 7e-121 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1) Lus10024962 [exp] 367 / 1e-120 AT1G62680 346 / 3e-113 Pentatricopeptide repeat (PPR) superfamily protein (.1) Lus10014247 [exp] 365 / 8e-119 AT1G62930 340 / 3e-109 RNA processing factor 3, Tetratricopeptide repeat (TPR)-like superfamily protein (.1) Lus10003427 [exp] 354 / 4e-117 AT1G12700 291 / 8e-92 RNA processing factor 1, ATP binding;nucleic acid binding;helicases (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0020 [poplar] [flax] TPR PF13041 [poplar] [flax] PPR_2 PPR repeat family
Representative CDS sequence Show only first row Show all	>Potri.013G034200.1 pacid=42812437 polypeptide=Potri.013G034200.1.p locus=Potri.013G034200 ID=Potri.013G034200.1.v4.1 annot-version=v4.1 ATGATGATGATGCGGAAAAGCACCTTCACAGCTTCTGCTTTTCAGCTTCAACAACGACAAATGGAAATGGGTAATTTTCCTAAACTCCCTTTTTTCTTAT TCTTCATTCACCAGCACATCACTGCTTCTACTGCTTCTACCACCAAAATTAGTCCTTCCTCGAGAAACAATGGCGGGTTTTGTAATAATTATAGCACTCT TCATAGTGTTGCTGATGCCGTTGCTTCTTTCAATGAGTTGCTTAGCATGCGTCCAATGCCACCCGTTGTGGAATTTAACAAGTTATTAGGGTCCCTCGTG AAAAAGAAACATTACTCAACTGTAATTTCTCTCTGCAAACAAATGGATTTGTCAAATATCAGACCTGATGTGTATACTCTTACCATTTTGATTAACTGCT TCTGCCACTCCAACCATGATCATTTTCATTTTGCTTTCTCTGTTTTGGGTAACATGTTCAAACTTGGTCTTCAACCTAATCATGTCACTTTCAGTACCCT ACTTAACGGCCTTTCCTCTAAGGCCAAAATCATTGATGCTGTAAAATTGTTTGATGAGATGGTAAAGATGGGGTATGAACCTGATGTGATTACTTATAGT ACTATAATTAATGGTTTATGCAAAATGGGCAGCACGACCATGGCAATCCAGTTGCTCAAGAAGATGGAAGAAAAAGGTTGTAAGCCAAATGTGGTGGTAT ATAGTACAATCATAGATAGCCTTTGCAAAGATAAACTCATAACTGAAGCCATGGAATTCCTATCTGAAATGGTCAATCGGGGCATTTCACCAAATGTTGT TACTTACAGCTCGATTCTGCATGGTTTTTGCAATTTGGGTCGATCAAATGAAGCAACAAGCTTGTTCAAGCAAATGGTTGAAAGGAATGTTATGCCAGAT ACAGTGACATTCAATATCTTGGTTGATGGACTTTCTAAAGAAGGGATGATTTTAGAAGCTCAGTGTGTTTTTGAAACGATGATTGAAAAGGGTGTGGAAC CAAATGTTAACACGTACAATGCTTTGATGGATGGATACTGTTCGCAGAGCCAAATGGACGAGGCCCAAAAATTGTTCAACATTATGGTTCGCAAGGGTTG CGCACCTAGTGTTCGAAGTTATAACATATTGATCAAGGGGCACTGTAAGAGTGGAAGGATTGATGAGGCAAAGGGACTCCTTGCTGAAATGTCTCATAAA GCATTGACTCCTGATACTGTCACTTATAGTACTCTAATGAAAGGTTTTTGCCAAGATGGGAGACCTCAGGATGCACAGAAGCTTCTTGAGGAGATGCGTT CTTATGGCCTGCTTCCAGATTTGATGACTTACTCGATTGTGCTAGATGGCTTATGCAAACAAGGCCATTTGGATGAGGCATTCGAACTGCTCAAGGCAAT GCAGGAGAGCAAGATAGAACCTAATATTTTCATTTATACTATCCTTATTCAAGGGATGTGCAATTTTGGCAAGCTTGAAGCTGTAAGGGAACTGTTCTCC AATCTTTTTGTTAAAGGAATACAACCTGACGTGGTTACATATACTGTCATGATCAGTGGACTTTTGAAAGGAGGACTATCAAGTGAAGCATGTGAGTTGT TTAGAGAAATGGCTGTTCATGGCTGCTTGCCGAATAGTTGCACTTACAACGTTATAATCCAAGGATTTCTTCGAAACGGTGACACATCAAATGCAGGACG ACTAATCGAAGAAATGGTTGGTAGAGGGTTCTCTGCAGATTCGTCTACATTTCAGATGTTATCGGATCTGGAATCGAGGGATGAAATCATAAGTCTCTTT ATGCATGGAAGCTCACAAGGTAGAAAAATGAAGTAA
AA sequence Show only first row Show all	>Potri.013G034200.1 pacid=42812437 polypeptide=Potri.013G034200.1.p locus=Potri.013G034200 ID=Potri.013G034200.1.v4.1 annot-version=v4.1 MMMMRKSTFTASAFQLQQRQMEMGNFPKLPFFLFFIHQHITASTASTTKISPSSRNNGGFCNNYSTLHSVADAVASFNELLSMRPMPPVVEFNKLLGSLV KKKHYSTVISLCKQMDLSNIRPDVYTLTILINCFCHSNHDHFHFAFSVLGNMFKLGLQPNHVTFSTLLNGLSSKAKIIDAVKLFDEMVKMGYEPDVITYS TIINGLCKMGSTTMAIQLLKKMEEKGCKPNVVVYSTIIDSLCKDKLITEAMEFLSEMVNRGISPNVVTYSSILHGFCNLGRSNEATSLFKQMVERNVMPD TVTFNILVDGLSKEGMILEAQCVFETMIEKGVEPNVNTYNALMDGYCSQSQMDEAQKLFNIMVRKGCAPSVRSYNILIKGHCKSGRIDEAKGLLAEMSHK ALTPDTVTYSTLMKGFCQDGRPQDAQKLLEEMRSYGLLPDLMTYSIVLDGLCKQGHLDEAFELLKAMQESKIEPNIFIYTILIQGMCNFGKLEAVRELFS NLFVKGIQPDVVTYTVMISGLLKGGLSSEACELFREMAVHGCLPNSCTYNVIIQGFLRNGDTSNAGRLIEEMVGRGFSADSSTFQMLSDLESRDEIISLF MHGSSQGRKMK

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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
AT1G12700		RPF1	RNA processing factor 1, ATP b...		Potri.013G034200 [exp]	0	1
AT5G57970			DNA glycosylase superfamily pr...		Potri.003G182300 [exp]	5.47	0.6837
AT3G14120			unknown protein		Potri.001G165900 [exp]	6.32	0.7062
AT4G38180	FAR1_related	FRS5	FAR1-related sequence 5 (.1)		Potri.015G139300 [exp]	7.48	0.6870
AT4G15080			DHHC-type zinc finger family p...		Potri.006G020800 [exp]	8.83	0.6649
AT2G43770			Transducin/WD40 repeat-like su...		Potri.013G128001 [exp]	11.53	0.6327
AT4G00490		BAM2, BMY9	BETA-AMYLASE 9, beta-amylase 2...		Potri.014G083800 [exp]	12.04	0.6715
AT5G63460			SAP domain-containing protein ...		Potri.012G096900 [exp]	12.12	0.6645
AT4G30360		ATCNGC17	cyclic nucleotide-gated channe...		Potri.018G097600 [exp]	12.36	0.6627
AT4G34880			Amidase family protein (.1)		Potri.009G130500 [exp]	15.81	0.6564
AT1G19520		NFD5	NUCLEAR FUSION DEFECTIVE 5, pe...		Potri.005G228200 [exp]	17.14	0.6444

Compare expression of checked genes

Potri.013G034200 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.