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 AT5G45400 894 / 0 ATRPA70C Replication factor-A protein 1-related (.1) AT4G19130 860 / 0 Replication factor-A protein 1-related (.1) AT2G06510 697 / 0 ATRPA70A, ATRPA1A ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT A, ARABIDOPSIS THALIANA REPLICATION PROTEIN A 1A, replication protein A 1A (.1.2) AT5G08020 310 / 5e-95 ATRPA70B ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT B, RPA70-kDa subunit B (.1) AT5G61000 293 / 3e-88 ATRPA70D Replication factor-A protein 1-related (.1) AT1G52950 90 / 3e-18 Nucleic acid-binding, OB-fold-like protein (.1) AT3G42860 49 / 1e-05 zinc knuckle (CCHC-type) family protein (.1) AT3G43590 44 / 0.0005 zinc knuckle (CCHC-type) family protein (.1) AT1G60650 43 / 0.0006 AtRZ-1b AtRZ-1b, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.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.018G065300 [exp] 721 / 0 AT2G06510 897 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT A, ARABIDOPSIS THALIANA REPLICATION PROTEIN A 1A, replication protein A 1A (.1.2) Potri.015G057300 [exp] 300 / 6e-91 AT5G08020 875 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT B, RPA70-kDa subunit B (.1) Potri.007G057100 [exp] 47 / 3e-05 AT4G36020 127 / 3e-35 cold shock domain protein 1 (.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 Lus10023805 [exp] 971 / 0 AT5G45400 764 / 0.0 Replication factor-A protein 1-related (.1) Lus10003955 [exp] 898 / 0 AT4G19130 715 / 0.0 Replication factor-A protein 1-related (.1) Lus10034737 [exp] 516 / 7e-175 AT4G19130 517 / 2e-176 Replication factor-A protein 1-related (.1) Lus10033436 [exp] 483 / 7e-163 AT2G06510 600 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT A, ARABIDOPSIS THALIANA REPLICATION PROTEIN A 1A, replication protein A 1A (.1.2) Lus10033272 [exp] 424 / 9e-137 AT5G45400 363 / 2e-114 Replication factor-A protein 1-related (.1) Lus10033435 [exp] 373 / 5e-123 AT2G06510 426 / 4e-147 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT A, ARABIDOPSIS THALIANA REPLICATION PROTEIN A 1A, replication protein A 1A (.1.2) Lus10040517 [exp] 304 / 3e-92 AT5G08020 885 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT B, RPA70-kDa subunit B (.1) Lus10006548 [exp] 293 / 1e-88 AT5G08020 845 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT B, RPA70-kDa subunit B (.1) Lus10021153 [exp] 300 / 6e-88 AT5G08020 884 / 0.0 ARABIDOPSIS THALIANA RPA70-KDA SUBUNIT B, RPA70-kDa subunit B (.1) Lus10034736 [exp] 160 / 5e-44 AT5G45400 90 / 3e-20 Replication factor-A protein 1-related (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0511 [poplar] [flax] Retroviral_zf PF00098 [poplar] [flax] zf-CCHC Zinc knuckle CL0021 [poplar] [flax] OB PF01336 [poplar] [flax] tRNA_anti-codon OB-fold nucleic acid binding domain CL0021 [poplar] [flax] OB PF04057 [poplar] [flax] Rep-A_N Replication factor-A protein 1, N-terminal domain CL0021 [poplar] [flax] OB PF08646 [poplar] [flax] Rep_fac-A_C Replication factor-A C terminal domain CL0021 [poplar] [flax] OB PF16900 [poplar] [flax] REPA_OB_2 Replication protein A OB domain
Representative CDS sequence Show only first row Show all	>Potri.003G102700.1 pacid=42785392 polypeptide=Potri.003G102700.1.p locus=Potri.003G102700 ID=Potri.003G102700.1.v4.1 annot-version=v4.1 ATGAATCTGACGGAAGGAGCAATATCCAAGATAACGAGCGGAGGAGCCACCTCGGCCGAACTGAAGCCGACGCTGCAAGTGACAGATTTGAAGCAGGTGC AGACGAAGCAACCGCAACAGAGTGATCGGTTTCGGTTGGTTTTATCTGATGGGTCTCATTTGCAACAAGCTATGCTTGGGACTCAAATTAATCATTTGGT TAAAGACGGGAACTTGCGGATTGGTTCTATTGTTCAGTTGAATCAGTATACTTGTACTACCGTTCAAGGCCGCATGATTATTATTATTCTCGAATTGGCC CTGGTAGCTGAAGATTGTGAGTTGATTGGAAATCCTGTATCGGCTCAAAGATCTTCAGGGCCTTCACCATCACCGGTTGCTCAACCAGGAAACGTCAATG CAAGTCCTAAATCATTTGGTACCAACTCAGTTACTGGTGGTGTGGTTGGGAATCAAAATATGTCTGCAGCACCTGTACAAAGCCCTGAGATAAATCAGTT TCATAATACACCCCCTTCTAGCAATTATGGCCCAGGAAGGTTTGCTCCAACAAATGCTCCACCACTTTATCCGAAAGTAGAAGCTACTGCTGGATCAGTT CCATCAAGCGGGTTGTATGTTAATCAGAATGCAGGTTACCTTAACCCTAGACCAGAAATTTCACAGCCTCATATGGGAAGTTATTCCCGCCCCCCACAGT CAGCATATCAGCAACCGCCTCCAATGTACAGTAACAGAGGACCAGTTGCTAGGAATGAGGCTCCTCCAAGGATCATTCCAATAACAGCATTGAATCCATA CCAGGGTAGGTGGACTATTAAGGCTAGGGTGACTGCAAAAGGAGAGCTCAGGCATTATAATAATACTCGTGGTGATGGTAAAGTTTTCTCCTTCGATCTT CTTGATTCTGATGGCGGAGAGATCAGAGTGACCTGCTTTAACCAGGTGGCTGACCAATTCTACCACCAGATTGAAGCTGGCAGGGTTTATTTGATTTCCA AGGGAAATTTAAAACCTGCTCAAAAGAATTTCAACCACCTTCGTCATGATCTAGAAATTTTCCTGGAGAGCACTTCAACCATACAGCCATGCTTTGAGGA TGACAACACAATTCCAAAGCAGCAATTTCATTTCCGTCCCATTAGTGATGTTGAAGACATGGAGAACAATAGTGTTGTGGATGTAATTGGGGTGGTAACA TCCATTGCTCCCACTACTTCGTTAATGAGAAAAAATGGGACAGAAACTCAGAAGAGAACCCTCCAATTGAAGGATATGTCTGGTCGAAGTGTTGAATTAA CCCTCTGGGGAAATTTCTGCAATGCTGAGGGTCAAAGGCTACAACACATCTGTGATTCAGGAGGTTTCCCTGTTCTTGCTGTCAAATCAGGTAGAATCAG TGAATTTAGTGGGAAGGCAGTGGGGACTATATCTACAAGTCAGCTATTTATAGAACCAGATTCTCCAGAGGCTAACAGGCTAAAGGAATGGTTTGACAGA GATGGGAGGAACACTCCTTCTCTTTCAATTTCTAGGGAAACTTCAACTTTGGGTAGGTCAGATGTCATGAAGACTATTTCTCAAATAAAGGATGAGAGGC TAGGAACATCTGAGAAGCCTGATTGGATCACTGTCCCTGCGACTGTTATATATGTTAAGTCTGACAATTTCTGCTATACAGCTTGCCCCATCATGTCAGG GGAACGGCCATGCAATAAAAAAGTCACCAATAATGGAGATGGGAAGTGGCGGTGTGAAAAGTGTGATCAATCTGTGGATGAATGTGACTACAGATATATA CTCCAGTTTCAGATACAGGACCATACTGGCATATCATGGGTGACTGCATTCCAGGAATGTGGTGAGGAGATAATGGGTATATCTGCAAAAGATTTGCATT ATTTGAAGCATGAACAGCAAGATGATGAGGGATTTTCAAAAGTACTTCGCCAGGTTCTGTTTAGTAGATATGTATTCAAGTTAAAAGTGAAGGAGGAAAC TTTCAGTGATGAACAGCGTGTAAAGTCTACTGTTGTCAAATCAGAAAAGGTGAATTATTCATCTCAGTCCAGGCTTCTTCTGGATATGATGGAGAAGTTT AAATCAGGGAATGATACTTCTTTTGCCTGCAAAGCAGAATCTAGTTACCATAACCCTGGTGTGAATAATGCTGTAATTGGAAATTTTGGAAGCAGACAAG CTGGACCACCAGGATCAAACCCTGTGGGGAGCACCAGCTATACTGGTAATGTCGGGTTACCAGCAAATCAATTGGGCCAGTATGGAAACCAGCAAAACCC TATGTTCCCCATGCAAAGTTCTTCCGGTGCTTATCGAAGCTGCAACAGCTGTGGGGCCACCAGTCATAGCTCAGCAAATTGCCCAAGTATGGTGAATGCT CCGGGGCAGTCTATGGGAGGGAGCTATGCCAATAGAACTTCTCAGGGGGGCACTGGTGAATGCTATAAATGCCATCAAGTTGGGCACTGGGCAAGAGACT GCCCTGGGTTAAGCAGCTCTGGCAAAATGGGAGGTATTTCAAAGCAACATGTGGGTGGTTTCTGA
AA sequence Show only first row Show all	>Potri.003G102700.1 pacid=42785392 polypeptide=Potri.003G102700.1.p locus=Potri.003G102700 ID=Potri.003G102700.1.v4.1 annot-version=v4.1 MNLTEGAISKITSGGATSAELKPTLQVTDLKQVQTKQPQQSDRFRLVLSDGSHLQQAMLGTQINHLVKDGNLRIGSIVQLNQYTCTTVQGRMIIIILELA LVAEDCELIGNPVSAQRSSGPSPSPVAQPGNVNASPKSFGTNSVTGGVVGNQNMSAAPVQSPEINQFHNTPPSSNYGPGRFAPTNAPPLYPKVEATAGSV PSSGLYVNQNAGYLNPRPEISQPHMGSYSRPPQSAYQQPPPMYSNRGPVARNEAPPRIIPITALNPYQGRWTIKARVTAKGELRHYNNTRGDGKVFSFDL LDSDGGEIRVTCFNQVADQFYHQIEAGRVYLISKGNLKPAQKNFNHLRHDLEIFLESTSTIQPCFEDDNTIPKQQFHFRPISDVEDMENNSVVDVIGVVT SIAPTTSLMRKNGTETQKRTLQLKDMSGRSVELTLWGNFCNAEGQRLQHICDSGGFPVLAVKSGRISEFSGKAVGTISTSQLFIEPDSPEANRLKEWFDR DGRNTPSLSISRETSTLGRSDVMKTISQIKDERLGTSEKPDWITVPATVIYVKSDNFCYTACPIMSGERPCNKKVTNNGDGKWRCEKCDQSVDECDYRYI LQFQIQDHTGISWVTAFQECGEEIMGISAKDLHYLKHEQQDDEGFSKVLRQVLFSRYVFKLKVKEETFSDEQRVKSTVVKSEKVNYSSQSRLLLDMMEKF KSGNDTSFACKAESSYHNPGVNNAVIGNFGSRQAGPPGSNPVGSTSYTGNVGLPANQLGQYGNQQNPMFPMQSSSGAYRSCNSCGATSHSSANCPSMVNA PGQSMGGSYANRTSQGGTGECYKCHQVGHWARDCPGLSSSGKMGGISKQHVGGF

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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
AT5G45400		ATRPA70C	Replication factor-A protein 1...		Potri.003G102700 [exp]	0	1
AT5G44230			Pentatricopeptide repeat (PPR)...		Potri.005G119000 [exp]	12.96	0.8078
AT1G80150			Tetratricopeptide repeat (TPR)...		Potri.001G171300 [exp]	20.88	0.8073
AT1G18610			Galactose oxidase/kelch repeat...		Potri.015G059400 [exp]	22.13	0.7916
AT2G36350			Protein kinase superfamily pro...		Potri.004G186300 [exp]	26.40	0.7656
AT5G40400			Pentatricopeptide repeat (PPR)...		Potri.017G071600 [exp]	30.19	0.7983
AT3G56720			unknown protein		Potri.006G039900 [exp]	37.82	0.7428
AT5G55600			agenet domain-containing prote...		Potri.016G007500 [exp]	43.35	0.7722
AT3G04130			Tetratricopeptide repeat (TPR)...		Potri.010G055500 [exp]	43.80	0.7650
AT3G24150			unknown protein		Potri.018G128700 [exp]	44.82	0.7480
AT5G54890			RNA-binding CRS1 / YhbY (CRM) ...		Potri.001G423800 [exp]	49.50	0.7411

Compare expression of checked genes

Potri.003G102700 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.