Plant FIBer expression Database

Pt-TOP1.2 (Potri.011G092700) [POPLAR]


External link
JGI Phytozome v13PopgenieAspWood                  
Symbol Pt-TOP1.2
Arabidopsis homologues
Locus ID BLAST score/e-value TF class Alias TAIR10 short description
AT5G55310 914 / 0 TOP1alpha, TOP1BETA DNA topoisomerase 1 beta (.1)
AT5G55300 868 / 0 MGO1, TOP1BETA, TOP1ALPHA TOPOISOMERASE 1, MGOUN 1, DNA topoisomerase I alpha (.1.2.3)
AT4G26701 125 / 2e-34 DNA binding;DNA topoisomerase type Is (.1)
Paralogs
Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description
Potri.001G359700
[exp]
1285 / 0 AT5G55310 934 / 0.0 DNA topoisomerase 1 beta (.1)
Flax homologues
Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description
Lus10032571
[exp]
1039 / 0 AT5G55310 971 / 0.0 DNA topoisomerase 1 beta (.1)
Lus10043175
[exp]
1030 / 0 AT5G55300 971 / 0.0 TOPOISOMERASE 1, MGOUN 1, DNA topoisomerase I alpha (.1.2.3)
Lus10043172
[exp]
959 / 0 AT5G55310 880 / 0.0 DNA topoisomerase 1 beta (.1)
Lus10032572
[exp]
608 / 0 AT5G55310 580 / 0.0 DNA topoisomerase 1 beta (.1)
Lus10032573
[exp]
258 / 9e-78 AT5G55300 213 / 3e-61 TOPOISOMERASE 1, MGOUN 1, DNA topoisomerase I alpha (.1.2.3)
PFAM info
Clan ID Clan name Pfam ID Pfam name Pfam description
CL0382 DNA-mend PF01028 Topoisom_I Eukaryotic DNA topoisomerase I, catalytic core
CL0382 PF02919 Topoisom_I_N Eukaryotic DNA topoisomerase I, DNA binding fragment
CL0382 PF14370 Topo_C_assoc C-terminal topoisomerase domain
Representative CDS sequence
>Potri.011G092700.7 pacid=42781767 polypeptide=Potri.011G092700.7.p locus=Potri.011G092700 ID=Potri.011G092700.7.v4.1 annot-version=v4.1
ATGCATGCCAGCACAGACCCTAGTTGGACTCTAATGGTTGTTCAGGCACCTCCAAAGCCAATTCTCAATAATTTCAATGACGACGACGACGACGACGGGC
CCATAGTTTTCAAGAGAGGTGGTAACTCAACCTCTAAGCAAAATCAACCAAACCTTGAAGCAAAGAAACCATCTTCATCTTCTCAGAATTCCAATGGTCA
AAGCTTGAATGCCCACAAAGGCAAATCACCCATTTCATCTTCCAATGCATCCCCTGTGAAATCTCCTATAGGGAGCCCTAAAGCATCAGCTTCATCTGCC
AAGGCATCCCCAATGAAGCCACCAGTGACATATTCTAGAGTGCCAAGTTCTTCAATTGCCGTTAAGGAGGAGACCAAACCGATTGTGGATGATGATGATT
CTGAGGATGATAAGCCCTTGAGTTCTAGATTTAAGGGGAGCACTAACAATGCCAACAAAGGGGTTACTGTACCTGCTCGTGTCAAGGATGAACATTCAGA
TGATGATGAAGTCCCTTTATCCTCGAGGTTTGCAGCAAAGTCAAATGCAGGGTCATCAAGCTGTAAGACTATCAGTTCTAGTGAGAAGATATTGTTGGTT
TCAAAAATTCAGCTAAATGGTTCTACTGCAAAGGACAAGCAACAAAAATCTTCTGCTGTGCCAACTAAGAGACCTATGGATAATAAGGTTCCTTCAAACC
AGTCTTTTGCTAAAAAACCAAAACTTTCAGATGCGTCTACAACGAAGCAAGTTACTGTCAAGGCTGAGCTGAAGGCAGATGATGATGACCACCTTACAAT
TTCCCAGAGAATGAAGAAAGCAAGCTCCTCATCTAACAAATCATTGTCTGTGAAGCAAAATGTAACAAAAGTTGTTTCTTTTTCATCCAAGAAGACGACC
AAGAATAACAAGAAACAAATGCAAAATTCAAAATATTCAAAGTCAACAAAAGTACAACCTGGCTCCAGTGATGGGCAGAAAAAATGGAAAACCTTGGTTC
ACAACGGTGTCATCTTCCCACCTCCATACAAGCCTCATGGGGTTAAGATGCTTTACAAGGGGAAACCAGTTGATTTGACTCCTGAACAGGAGGAGGTTGC
AACCATGTTTGCGGTGATGAAAGATACAGAATATGTTCAAAAACCACAATTCCTTCAAAACTTTTGGAATGATTGGCGTACATTACTTGGGAAGAATCAT
GTAATACAGAAGCTAGAGGCCTGTGATTTCAACCCAATATATGAATGGCATCAGAAAGAAAAGGAGAAGAAGAAACAAATGAGTACTGAAGAGAAGAAGG
CTGTGAGAGAAGAGAAATTGAAGCAAGAGGAGATGTATATGTGGGCGATTGTTAATGGGGTTAAAGAGAAGGTTGGGAATTTCAGAGTTGAACCACCTGG
TCTATTTCGAGGACGGGGAGAGCATCCAAAGATGGGAAAGCTGAAAAGCCGTATTCGTCCCAGTGACATTACTATAAATATTGGAAAGGATGCCCCAATC
CCAAAATGTCCTATTCCTGGTGAAAGGTGGAAAGAAGTGAAGCATGATAACACTGTTACATGGTTGGCATTCTGGAATGATCCAATCAATCCAAAGGAAT
TCAAATATGTATTCTTGGCTGCCAGCAGTTCCTTGAAGGGGCAAAGTGACAAGGAGAAATATGAAAAAGCAAGGAAGTTGAAGGACTATATACACAACAT
CAGAACAGCTTACACAAAGGATTTTGCAAGTAAAGATATTACAAAGCGGCAAATAGCAGTGGCAACCTATCTTATTGATAAACTAGCTCTTAGGGCGGGT
AATGAGAAGGATGATGATGAAGCTGATACTGTTGGTTGCTGCACATTAAAAGTAGCAAATGTTGAGTGCATCCCTCCGAATAAGTTGAAGTTTGACTTCC
TTGGTAAAGATTCAATTCGATATGAAAACACAGTCGAGGTTGAGCTTCCTGTGTACAAGGCAATTAGACAGTTTCAAGTTGCAAAAAAGCCAACTGATGA
TCTTTTTGACTCTCTGGATACAAGTAAACTAAATGCTCACCTAAAAGAACTCATGCCTGGCCTTACAGCAAAAGTTTTTCGTACATACAATGCATCTATC
ACATTGGATGAAAAGTTATATGAGGAGACAGAAGATGGTGACGTTGCTGAAAAATTTGTCATTTATAACCAAGCAAACAAACAGGTTGCAATCATTTGTA
ATCATCAACGTACTATTTCAAAATCTCATGATGCACAAATGTCAAGATTGACCGAGAAACTTGAGGAACTTAAGGGCACACTGAAGGAGTTCAAAACTGA
TCTGGACAGGGCCAAAAAGGGGAAGCCCCCATTGAAGGATGCAGATGGAAAGCAAAAGAGGAACTTGACTCCTGAAGCCATAGAGAAGAAGATAGCAACA
ACCAATCAAAAGATTGAGAAAATGGAACTGTCCATGAAGACCAAAGAGGATCTGAAAACGGTAGCATTGGGCACGTCCAAAATTAATTACCTTGATCCTA
GGATTACAGTTGCATGGTGCAAGCGGCATGAAGTTCCTATTGAGAAGATATTCAACAAGTCTCTCCTAGCGAAGTTTACTTGGGCAATGGACGTTGACCC
CCAGTTCAGATTCTGA
AA sequence
>Potri.011G092700.7 pacid=42781767 polypeptide=Potri.011G092700.7.p locus=Potri.011G092700 ID=Potri.011G092700.7.v4.1 annot-version=v4.1
MHASTDPSWTLMVVQAPPKPILNNFNDDDDDDGPIVFKRGGNSTSKQNQPNLEAKKPSSSSQNSNGQSLNAHKGKSPISSSNASPVKSPIGSPKASASSA
KASPMKPPVTYSRVPSSSIAVKEETKPIVDDDDSEDDKPLSSRFKGSTNNANKGVTVPARVKDEHSDDDEVPLSSRFAAKSNAGSSSCKTISSSEKILLV
SKIQLNGSTAKDKQQKSSAVPTKRPMDNKVPSNQSFAKKPKLSDASTTKQVTVKAELKADDDDHLTISQRMKKASSSSNKSLSVKQNVTKVVSFSSKKTT
KNNKKQMQNSKYSKSTKVQPGSSDGQKKWKTLVHNGVIFPPPYKPHGVKMLYKGKPVDLTPEQEEVATMFAVMKDTEYVQKPQFLQNFWNDWRTLLGKNH
VIQKLEACDFNPIYEWHQKEKEKKKQMSTEEKKAVREEKLKQEEMYMWAIVNGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKSRIRPSDITINIGKDAPI
PKCPIPGERWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDKEKYEKARKLKDYIHNIRTAYTKDFASKDITKRQIAVATYLIDKLALRAG
NEKDDDEADTVGCCTLKVANVECIPPNKLKFDFLGKDSIRYENTVEVELPVYKAIRQFQVAKKPTDDLFDSLDTSKLNAHLKELMPGLTAKVFRTYNASI
TLDEKLYEETEDGDVAEKFVIYNQANKQVAIICNHQRTISKSHDAQMSRLTEKLEELKGTLKEFKTDLDRAKKGKPPLKDADGKQKRNLTPEAIEKKIAT
TNQKIEKMELSMKTKEDLKTVALGTSKINYLDPRITVAWCKRHEVPIEKIFNKSLLAKFTWAMDVDPQFRF

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
AT5G55310 TOP1alpha, TOP1... DNA topoisomerase 1 beta (.1) Potri.011G092700
[exp]
0 1 Pt-TOP1.2
AT5G12400 DNA binding;zinc ion binding;D... Potri.009G049100
[exp]
2.64 0.8564
AT5G21160 LA RNA-binding protein (.1.2.3... Potri.001G220100
[exp]
5.83 0.7722
AT1G77300 ASHH2, CCR1, SD... LAZARUS 2, CAROTENOID CHLOROPL... Potri.005G182100
[exp]
6.16 0.8397
AT1G17980 PAPS1 poly(A) polymerase 1 (.1), pol... Potri.015G043200
[exp]
7.14 0.7957
AT2G16485 nucleic acid binding;zinc ion ... Potri.007G016000
[exp]
7.74 0.7922
AT5G58040 FIP1[V], ATFIP1... homolog of yeast FIP1 [V], hom... Potri.018G110100
[exp]
8.00 0.8366
AT5G65540 unknown protein Potri.007G011800
[exp]
8.06 0.8103
AT5G11700 unknown protein Potri.006G234500
[exp]
8.83 0.8330
AT1G44910 ATPRP40A pre-mRNA-processing protein 40... Potri.014G013100
[exp]
9.79 0.8387
AT4G32620 Enhancer of polycomb-like tran... Potri.006G246200
[exp]
10.39 0.8213

Potri.011G092700 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.