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BLAST
- Version 5
  Genome v0.5 Transcriptome v5.1
- Version 6
  Genome v0.5 Transcriptome v6.1
BROWSE
- GBrowse
  Gbrowse the Genome
- JBrowse
  JBrowse the Genome
ATLAS
- Gene ATLAS
  Patterns of Gene Expression and links to Gene map and Transcript information
  Version 5 Version 6
- microRNA ATLAS
  Chromosome location of miR genes, hairpin structures of pre-miRNAs and links to target genes
- SEARCH Annotation by Keywords
  Version 5 Version 6
- SEARCH Sequence by ID
  Version 5 Version 6
BABELFISH
- Benth Babelfish
  Relates genes, transcripts and scaffold locations between Solgenomic's and our assembies.
Tools
- amiR
  Vectors and Designer for artificial miRNAs
- RNAi
  Vectors and Designer for hpRNA silencing
- CRISPR Nickase
  Find sites (reduced off-target) and design constructs
- CRISPR U6-Cas9
  Find sites (fewer) and design constructs
- CRISPR tRNA-Cas9
  Find sites (more) and design constructs
Vectors
- RNAi Vectors
  pHannibal, pKannibal and pHellsgate Vectors
- amiR Vectors
  pBlueGreen Vector for primer designer system
- VIGS Vectors
  p35S:PVX and pCMV Vectors
- Expression Vectors
  pART7 and pART27 Vectors
Plasmid Bank

In-house plasmids

RNAi Target Tester

Quickstart H.armigera Acetylcholinesterase vs the animal spectrum

For predicting cross-silencing in Trans-Kingdom RNAi

Simple Sequence Manipulations

Reverse Complement

Protein Cleanup
Biology
- Wild and Lab Isolate Descriptions
  Descriptions of wild and lab isolate collection sites and phenotypes.
- Details of 16c
  Description of the site and inserted sequence of 16c isolate.
- Evolution
  Evolution of N.benthamiana and the Suaveolentes
- Relatives
  Meet the Relatives
- Provenance
  Provenance of Lab Isolate
- Available Seed
  Seed of LAB and wild N.benthamiana
- Movies
  Time lapse movies of:
  GFP-labelled virus spread
  mobile silencing signal
Information
- Sequencing
  Genome and Transcriptome Assemblies and Metrics
- Dataset Downloads
  Genome and Transcriptome Assemblies for downloading
- Dataset Details
  Details about tracks loaded onto GBROWSE and databases for BLAST.
- Consortium
  The people (past and present) in the Consortium
- Publications
  Our publications about the Benth Genome and Transcriptome
- Leave a Message
  Type your question or message into query box
The CTCB

We are at the
Gardens Point Campus
in Brisbane, Australia.

Email: ctcbenquiries@qut.edu.au
Phone: 07 3138 2000
Mon - Fri, 8.30am - 5pm
HELP

Artificial microRNA TARGET FINDER and DESIGNER

Helps you chose good sites for your amiRs and design the primers for pBlueGreen

Details (optional)

Your Name
Gene Name
Your Email
Send results to your email
Is your sequence RNA or DNA? RNA DNA
Arab Benth Other

Paste the Sequence of Your Target Gene here :

AAATCATCCGCCATTTCCTCACACTTTCTCGTTATCTTCCTATCTTACAATTACCGTTTCCTCCATTTCATCGATCCTTC TGGAATCATCAAGAATCCTCCAACTTCCACGACCCCACTATGTATTTTCCCATTTTCTCTTTACATTTTCGATTTCTTAG TTACAAATGACAGCCCTTTTTAGTCATCTTACATTCCTTAGTCTCCACTCTATATACGGTGTTCAGTCATTTTACTCTTC ATAAGTACACATTACTAGATCCTTGCAGTTGCAGATCATCTGAGCTTTTTCATTTTGAAAATTTACAGTCAAGTTTTTTT TTCTCTTTAGTGAAGTTGGAAAATGGATCGTGGAAATTACCGACTTGGTGGTGGTGACAGCAATCGTGGTGGTGGTGGTG GTGGTGGAGGTGATAGCAGCCGCGGCGGTGGTGGTGGAGGTAACCGTGGTCGCGGCCGCGGTGGTGGTCAATACGAACAG GAGCAAGGCCGTGGAGGTGGAAGGGGTGGGTTCCAGATTGGTGGCGGAAGGGGTGGGCCCTCCCAGATGGGTTCATTCAA CCAGCAACCAATTCAGCCACCACAGCAATGGGGTAACCAGCCAAGAGCATCTGGTCCGGGTCAGTATCAGGCTCGTGGAG CTCCGTATAATCAGCCGGGTCTGCAGCATCCAGTTGGACGAAGTCCGGGTCGTGGTGGTGCATGGGTCAGCCGTGGAGGT GGCGGTACTGCTTGGGCCCGGCCACCACCGCAGCAGCCACAGCAACATGGTAGTGGCAGCAGTGGTACTGCTTGGGCCCG GCCACCGCAGCAGCAACTTGTTAGTGGCGGCAGTGGTACTGCTTGGGTCAGGCCACCGTCGCAGCAGCCACCACAACATG GTGGTGGAAACCAGCAGCAGCGGGATGTGCAACCCAATAGCTCAGAAGCATCAACTGTTCGCCAGTGGGGTCCACCTTCA GGCTCTAGTCCTCCTCCTCCTCAGTCTTCTGATCCTGTTCAAGTTGATCTGAAGTCGCTGAGTATTACAGAAAAAGAGAG TACATCATCTCCTCCGGAAAGTAACAACGGAAAGCTTGTACCTATTGCACGACCTGATACGGGAAAAGTTGCTGTCAAGT CAATTAGACTGCTTGCTAATCATTTTCCTGTTAGATTTAATCCTCAGTCTACCATTATGCATTATGATGTGGATATCAAG CAAATCATGACTGATGAGACCCGGGCTGTGAAGAAGTCAATAAACAAGTCTGATCTTCGTATGATAAGAGATAAGCTGTT TGCTGATAATCCTGGTCAATTTCCAATAGACAAAACTGCATATGATGGTGAGAAGAACATTTTCAGTGCTGTCCAACTTC CTACTGGGCGATTCACTGTGAACTGCTCAGATGGGGATGAGGGTAGGGGACGCTCGTATGTCTTTACCATCAAGTTTGTT GCTGAACTGAAACTTTGCAAGTTGAAAGAATATTTGAGTGGAAGCCTCTCATACATACCTCGTGATGTACTACAAGGAAT GGATTTGGTTATGAAAGAAAATCCTTCTAGGTTAAGGATAATTGCAGGTCGTAGCTTCTACTCAAATGAGCACTTGGCTG AACATGACTTTGGGTTTGGAGTTGCTGCATATAGAGGTTTTCAGCAAAGCCTAAAGCCTACATCTGGAGGGCTTGCCTTG TGCCTAGATTACTCAGTCTTGGCATTCCGCAAAGCAGTGCCCGTGCTAGATTTCCTGAGGGAATATATTGGAGAGTTTAA TGAAAATAATTTTACTCGTAGAAGAGATGCAGAGGATGCATTGGTTGGTTTGAAAGTCAAAGTAACTCATCGTCGTAGCA GTCAGAAATATGTTGTTAAGAAGCTGACTGATGAGAAGACTCGCGACCTTCATTTTATCCTTGAAGATCCAGAAGGCAAA GATCCTCCTAAGAAAGTTTTTCTTGTTGACTACTTCAGGGAAAAATATCAGGTGGAGATTAGGTACCAAAATTTACCTTC ATTAGATCTTGGAAAAGGTAATAAGAAAAACTATGTCCCAATGGAATTCTGTGTCTTGATCGAGGGACAGCGGTTTCCTA AGGAGCATTTAGATAAGGATTCAGCCTTGTTTATGAAAAAAATATCACTAGTTCCACCACGAGAGAGAAGGGAGGCAATA TGTGAAATGGTACGGGCTGAAGATGGGCCATGCGGGGCTGTCACCCGTAATTTTGAAATTAGAGTTGATCGGAACATGAC CTGTGTTTCGGGTCGTATCCTTCCTACCCCTGATTTGAAGCTAGGTGGTCTAAGTCGAGTTCCCCTGGATAATAAATGCC AGTGGAACCTTGTTGGAAAATCTGTGGTGGAAGGCAAGGCGCTTCAGCGATGGGCTCTGATTGATTTTAGCTCCCAGGAA CGCAACCCCAACTTTAGGCTAAGAACTGATGAATTTGTCTTTAGATTGAAAGAGCGGTGCAAAAAGTTAGGGATCAACAT GGAAGAACCTGTCATAACACATTTCACTGGCATGTATGAGCTCTCTGCAGTTGAAAAGGTTGAAGATCTCCTCAGAGGTG TGGTTCGTGCAGCTGACGAGAAAATCAAGGACAGACTACAAATGATAGTTTGTGTTATGGCAGCAAAGCACAATGGATAC AAATATCTTAAATGGGTCTCTGAAATAAAAATTGGTGTTGTAACGCAATGTTGCTTGTCATCTCTAGCCAACAAGGGACA AGATCAATATCTTGCAAACCTTTGTATTAAGATTAACGCAAAATTGGGAGGTAGCAATATGGAACTTACGGGAAGGCTCC CTAATTTTGGAGGTGAAGATAATGTGATGTTCATTGGAGCTGATGTTAATCATCCTGCTGCAAGGAATGTGACATCTCCA TCTATAGCAGCTGTTGTTGCCACTGTCAACTGGCCAGCCGCTAATAGATATGCGGCTAGAGTTTGTCCTCAGGACCACAG GACTGAGAAGATACTAAATTTTGGGAGCATGTGTGCAGACCTACTGAATGCTTACACTCTACTCAACTCGGTTAAACCAA ACAGAATTGTTGTTTTCCGTGATGGTGTGAGTGAGGGCCAATTTGATATGGTACTTAATGAAGAGCTGGTTGATTTGATG AAGGCTATATACGATGATCACTATCGACCAGCAATCACTCTTGTTGTGGCTCAGAAAAGACACCATACACGACTATTTCC TGATGGTGGCCCTGGCAATGTACCTCCGGGTACTGTTGTGGACACAGTAATTGTTCATCCATCTGATTTTGACTTCTATC TTTGCAGCCATTTTGGAGGATTGGGAACTAGCAAGCCTACTCACTATCATGTTTTGTGGGATGAGAATGGCTTCAATTCT GACCGCTTACAGAAGCTTATATACAACATGTGCTTCACCTTCGCGCGGTGCACAAAACCTGTTTCACTTGTTCCACCAGT TTACTATGCTGACCTTGTTGCCTACCGGGGACGGATGTTCCAAGAGGTGCTTATGGAGATGCAGTCTCCTGCATCTTCAA CTGCATCCTTCACAACTTCATCGTCATCTTCTTCAACTACCTCATTTGAACAAGGATTCTTTAAATTGCACCATGAGCTG CAGAACAAAATGTTCTTTGTCTGATCGCAGGTACCCCATACTGTTCTGTCTGATGACAGCCACTTTTAGTGTTCTGTCTG ACGATAGACAACCCAGCTTTTTGATCTCCTTCACCACTCCCACACTGGTGGAGGAGGTGGTTGTCCACATTTTGGAGATG CCCATTTCCAAACGCATTTGAACCTCCTTTCTATCGACCTAGCAGGGTGTTTGTGCGTGAATCTAATGGGATTTCATGTT TGTTTTACTGCCATTCAGTCTTTTACTTTATGTGGTCCTCACTTCTAGAGGTATGACTTCTAGGAATGAGTTTGTCAAGT GATGTGTTAATGGTTTGACGTTTTATTTTGTGTGTTTACTTTGGTCTTTTAGGCCACTGCCAGTGTGTTTGAAGTTTACG ACTCTCTTTTATTTATGTATTCTGAGACAGAAACTGAATTTCTTCTATGTAAGTGTGTGAGCTACTTGAAGTCTGTTTAT CAGTTATTCAATGTGATTTGTATTTTCTCTCTTCATGTTTCTTTTTCTATGGATATAGTTTGTTCAATAGACCTTGGTGA

(lowercase,spaces, numbers etc will be auto corrected/removed)

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