Plant FIBer expression Database

Pt-RRF.1 (Potri.002G052400) [POPLAR]


External link
JGI Phytozome v13PopgenieAspWood                  
Symbol Pt-RRF.1
Arabidopsis homologues
Locus ID BLAST score/e-value TF class Alias TAIR10 short description
AT3G63190 308 / 2e-105 HFP108, AtcpRRF, RRF "ribosome recycling factor, chloroplast precursor", HIGH CHLOROPHYLL FLUORESCENCE AND PALE GREEN MUTANT 108, Arabidopsis thaliana chloroplast ribosome recycling factor, ribosome recycling factor, chloroplast precursor (.1)
AT3G01800 109 / 3e-28 Ribosome recycling factor (.1)
Paralogs
Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description
Potri.001G333700
[exp]
105 / 7e-27 AT3G01800 316 / 3e-109 Ribosome recycling factor (.1)
Flax homologues
Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description
Lus10042587
[exp]
303 / 9e-104 AT3G63190 315 / 2e-108 "ribosome recycling factor, chloroplast precursor", HIGH CHLOROPHYLL FLUORESCENCE AND PALE GREEN MUTANT 108, Arabidopsis thaliana chloroplast ribosome recycling factor, ribosome recycling factor, chloroplast precursor (.1)
Lus10022041
[exp]
275 / 3e-92 AT3G63190 291 / 9e-99 "ribosome recycling factor, chloroplast precursor", HIGH CHLOROPHYLL FLUORESCENCE AND PALE GREEN MUTANT 108, Arabidopsis thaliana chloroplast ribosome recycling factor, ribosome recycling factor, chloroplast precursor (.1)
Lus10035226
[exp]
102 / 2e-25 AT3G01800 367 / 5e-129 Ribosome recycling factor (.1)
Lus10032060
[exp]
100 / 2e-24 AT3G01800 372 / 4e-131 Ribosome recycling factor (.1)
PFAM info
Clan ID Clan name Pfam ID Pfam name Pfam description
PF01765 RRF Ribosome recycling factor
Representative CDS sequence
>Potri.002G052400.2 pacid=42777805 polypeptide=Potri.002G052400.2.p locus=Potri.002G052400 ID=Potri.002G052400.2.v4.1 annot-version=v4.1
ATGGCGGCTCCATTCTCTTCACCAACAACGCCACCGCCACTGAGGTCCATCTTTCAACCCAACCCAAACCCACCCAAAGCCCTCCTCTCCCTCCCAGGTT
CATTTCATAGAGGGCCCCACCGCGCCAAGGTTTGTTACAACAGTATTGGTGCTACTAGCGTGTCTTTGTGGAGCTCTTCTGCTAACTACTCCAGTCTCCG
TAACGGCTCCACCAAACTCTCCGGCAAGCCCGTTGCTGTAAAGCGGTTGCTGCAAAACAGAAGAGGAGTGGTGAGGAATGCTACTATTGAAGAAATCGAA
GCGGAGAAATCTTTGATTGAGGATGATGCTAAAGGAAGGATGGAAAAGACTATTGATACTATGAGAGCCAATTTTAATTCTGTGAGGACAGGCAGAGCAA
ATCCATCGATGCTAGATAAGATTGAGGTGGAATATTATGGAACTCCAGTCAGCTTGAAGAGCATAGCTCAAATCAGTACTCCTGATGCAAGTTCTCTCTT
GGTCCAGCCATATGACAAATCCAGCTTAAAGGCTATTGAGAAGGCCATTGTCAGCTCTGATCTTGGTTTGACTCCAAACAATGATGGAGAAGTGATAAGG
ATGTCTATTCCTCAATTGACATCTGAAAGAAGGAAGGAGCTATCAAAGATGGTGGCCAAATTAGCTGAAGAAGGAAAGGTGGCGTTGAGGAATATTAGAA
GAGATGCATTGAAAGCATATGAGAAACTCGAGAAGGAGAAAAAGCTCTCAGAAGACAATGTGAAGGATTTGTCAAGTGATTTGCAGAAACTTACAGATGA
GTATATGAAGAAATTAGAGAACATTTTCAAACAAAAAGAAAAGGAGTTGCTGAAGGTTTAA
AA sequence
>Potri.002G052400.2 pacid=42777805 polypeptide=Potri.002G052400.2.p locus=Potri.002G052400 ID=Potri.002G052400.2.v4.1 annot-version=v4.1
MAAPFSSPTTPPPLRSIFQPNPNPPKALLSLPGSFHRGPHRAKVCYNSIGATSVSLWSSSANYSSLRNGSTKLSGKPVAVKRLLQNRRGVVRNATIEEIE
AEKSLIEDDAKGRMEKTIDTMRANFNSVRTGRANPSMLDKIEVEYYGTPVSLKSIAQISTPDASSLLVQPYDKSSLKAIEKAIVSSDLGLTPNNDGEVIR
MSIPQLTSERRKELSKMVAKLAEEGKVALRNIRRDALKAYEKLEKEKKLSEDNVKDLSSDLQKLTDEYMKKLENIFKQKEKELLKV

DESeq2's median of ratios [POPLAR]

Mapped by: Order by: Show schematic diagram

Coexpressed genes

Only top 10 genes are shown Show allDownload tab-delimited text
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:WTNWB:WTNWA:OE-ARK2NWB:OE-ARK2NWA:miRNA-ARK2NWB:miRNA-ARK2NW 0hrWT H20WT-NWTUA1dEY NWTUA1dEY+TUB15 NWTUA1dY+TUB9 NWPde NWNWA:WT GANWBWT GATW:WTTW:WT GANWA:OE-ARK2 GANWB:OE-ARK2 GATW:OE-ARK2TW:OE-ARK2 GANWA:miRNA-ARK2 GANWB:miRNA-ARK2 GATW:miRNA-ARK2TW:miRNA-ARK2 GATW 2hrTW 8hrTW 24hrTW 48hrTW 96hrTW 336hrWT ACC35S::etr1-1 H2035S::etr1-1 ACCLMX5::etr1-1 H20LMX5::etr1-1 ACCWT-TWTUA1dEY TWTUA1dEY+TUB15 TWTUA1dY+TUB9 TWPde TWOW:WTOW:WT GAOW:OE-ARK2OW:OE-ARK2 GAOW:miRNA-ARK2OW:miRNA-ARK2 GAOW 2hrOW 8hrOW 24hrOW 48hrOW 96hrOW 336hrRoot CTRRoot LongColdRoot LongDrougtRoot LongHeatRoot LongSaltRoot ShortColdRoot ShortDrougtRoot ShortHeatRoot ShortSaltPtr rootLeaf CTRLeaf LongColdLeaf LongDrougtLeaf LongHeatLeaf LongSaltLeaf ShortColdLeaf ShortDrougtLeaf ShortHeatLeaf ShortSaltPtr leafStem CTRStem LongColdStem LongDrougtStem LongHeatStem LongSaltStem ShortColdStem ShortDrougtStem ShortHeatStem ShortSaltPtr shootPtr xylemPtr phloemPtr fiberPtr vesselPtr fiber vessel ray
AT3G63190 HFP108, AtcpRRF... "ribosome recycling factor, ch... Potri.002G052400
[exp]
0 1 Pt-RRF.1
AT1G15980 PnsB1, NDH48, N... Photosynthetic NDH subcomplex... Potri.001G044300
[exp]
1.41 0.9726
AT5G03940 SRP54CP, CPSRP5... SIGNAL RECOGNITION PARTICLE 54... Potri.006G211500
[exp]
3.31 0.9733 Pt-FFC.2
AT2G35410 RNA-binding (RRM/RBD/RNP motif... Potri.001G141300
[exp]
3.87 0.9609
AT2G45770 FRD4, CPFTSY FERRIC CHELATE REDUCTASE DEFEC... Potri.014G078800
[exp]
8.06 0.9599 CPFTSY.1
AT3G62030 CYP20-3, ROC4 cyclophilin 20-3, rotamase CYP... Potri.002G185200
[exp]
10.58 0.9550 ROC4.1
AT4G00050 bHLH bHLH016, UNE10 unfertilized embryo sac 10, ba... Potri.014G066500
[exp]
10.77 0.9607
AT5G55220 trigger factor type chaperone ... Potri.015G065900
[exp]
14.96 0.9539
Potri.009G088200
[exp]
14.96 0.9393
AT4G39710 PnsL4, FKBP16-2 Photosynthetic NDH subcomplex... Potri.005G079700
[exp]
17.14 0.9562
AT3G11945 PDS2, ATHST PHYTOENE DESATURATION 2, homog... Potri.006G197600
[exp]
17.49 0.9434

Potri.002G052400 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.