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GRNA DESIGN
Faculty of Advanced Technologies of Medical Sciences
Reza Rakhshi
Master student of medical biotechnology
CHOPCHOP SITE:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
RefSeq/ENSEMBL/gene name
or genomic coordinates.
Choose an Organism
CHOPCHOP SITE:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Change default PAM and
guide length in Options.
Choose your goal
CHOPCHOP SITE- OPTIONS:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Better than we target CDS or First and
Second exon
Optimum range for GC content is
40-60%
Self complementary is ZERO
CHOPCHOP SITE- OPTIONS:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Optimum range is between 19-20
Depends on Cas choose best sequence
Optimum range for first parameter is 3
And for second parameter is ZERO
G20 so important to us
Depends on our cell line
GG or NG/GN important for my RNA
Polymerase (T7 and U6)
Finally PRESS
“ find the target site”
RESULT:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Analyze results and
choose the best.
1. PAM seq.
2. G20
3. The 5′
base
4. Repeated base
DATA ANALYZE:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Low mismatch in 3′
is
better than
Possibility of
framshift
Possibility of
deletion
CAS-OFFINDER- PRECISE ANALYSIS OF MISMATCH:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
Choose your PAM seq
Write your gRNA seq.
without PAM seq.
Respectively
Write:
3
1
1
finally
CAS-OFFINDER- PRECISE ANALYSIS OF MISMATCH:
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
THANKS A LOT
REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY

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gRNA design

  • 1. GRNA DESIGN Faculty of Advanced Technologies of Medical Sciences Reza Rakhshi Master student of medical biotechnology
  • 2. CHOPCHOP SITE: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY RefSeq/ENSEMBL/gene name or genomic coordinates. Choose an Organism
  • 3. CHOPCHOP SITE: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Change default PAM and guide length in Options. Choose your goal
  • 4. CHOPCHOP SITE- OPTIONS: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Better than we target CDS or First and Second exon Optimum range for GC content is 40-60% Self complementary is ZERO
  • 5. CHOPCHOP SITE- OPTIONS: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Optimum range is between 19-20 Depends on Cas choose best sequence Optimum range for first parameter is 3 And for second parameter is ZERO G20 so important to us Depends on our cell line GG or NG/GN important for my RNA Polymerase (T7 and U6) Finally PRESS “ find the target site”
  • 6. RESULT: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Analyze results and choose the best. 1. PAM seq. 2. G20 3. The 5′ base 4. Repeated base
  • 7. DATA ANALYZE: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Low mismatch in 3′ is better than Possibility of framshift Possibility of deletion
  • 8. CAS-OFFINDER- PRECISE ANALYSIS OF MISMATCH: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY Choose your PAM seq Write your gRNA seq. without PAM seq. Respectively Write: 3 1 1 finally
  • 9. CAS-OFFINDER- PRECISE ANALYSIS OF MISMATCH: REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY
  • 10. THANKS A LOT REZA RAKHSHI, MASTER STUDENT OF MEDICAL BIOTECHNOLOGY