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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 6540R-1 
 Symbol CG6540  Full Name CG6540 
 CG No CG6540  Old CG No CG6540 
 Synonyms CG6540 
 Accession No (Link to NCBI) NM_133086.2 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees pupal lethal 
 Map Viewer
 Reference
[Please submit your publication] 		Umemori M, Habara O, Iwata T, Maeda K, Nishinoue K, Okabe A, Takemura M, Takahashi K, Saigo K, Ueda R, Adachi-Yamada T.
RNAi-mediated knockdown showing impaired cell survival in Drosophila wing imaginal disc.
Gene Regul Syst Bio (2009) 3 11-20 [ PubMed ID = 19838331 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgATGGAGCCAATGAATCTGGGC 
 Primer Seq. 3' 
aatctagaggtaccCCAAGTGGCGAGCACAGTGCT 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 ATGGAGCCAA TGAATCTGGG CAGCCCGGTC AACAGTCCTG GCTCCAACCA GACCCAGTAT 
0061 CTGCCACCTT TTCTGCTCGG CGATCCGCAA gGTATAACGC CGCACAAGAA CACGCTGTCC 
0121 CCGAAAACCG GGCGCTCTAA TATAAGTTTC GCCACCTCGC CCGGCGGCAG CAGTCCGCAC 
0181 GAGCTCAACC GCTCCGCTCT GAGCACACGC ACTCTGTTCG CCGCCCAAGG AGGcGCCCAC 
0241 ACGGCTGTgG GCGCCAACAG CTCAACGACC GCGCACGGCC AGACGCACAG CCACCACCAG 
0301 ACGGGACCGC CCACCCAGGG ACTCTTACGA CTCGCTGNGC GAACAGTCCG TCACCCCGAA 
0361 GAAGAAGAAC CATCTTGGCA TGCTGCAGTT GCAGTCACCG AACCAGAGCT ACCAGAGCAG 
0421 CTATCACACG AATGACTCGT TCGCACCCGG GGCGCCCAAT GNCCATCAAT GCCTCGATGC 
0481 GAGCACTGTG CTCNANTTTG CCACTTGG 
 in silico PCR Fragment 
0001 ATGGAGCCAA TGAATCTGGG CAGCCCGGTC AACAGTCCTG GCTCCAACCA GACCCAGTAT 
0061 CTGCCACCTT TTCTGCTCGG CGATCCGCAA GGTATAACGC CGCACAAGAA CACGCTGTCC 
0121 CCGAAAACCG GGCGCTCTAA TATAAGTTTC GCCACCTCGC CCGGCGGCAG CAGTCCGCAC 
0181 GAGCTCAACC GCTCCGCTCT GAGCACACGC ACTCTGTTCG CCGCCCAAGG AGGCGCCCAC 
0241 ACGGCTGTGG GCGCCAACAG CTCAACGACC GCGCACGGCC AGACGCACAG CCACCACCAG 
0301 ACGGGACCGC CCACCCAGGG ACTCTT-CGA CTCGCTGCGC GAACAGTCCG TCACCCCGAA 
0361 GAAGAAGAAC CATCTTGGCA TGCTGCAGTT GCAGTCACCG AACCAGAGCT ACCAGAGCAG 
0421 CTATCACACG AATGACTCGT TCGCACCCGG GGCGCCCAAT G-CCATCAAT GCCTCGATGC 
0481 GAGCACTGTG CTC------G CCACTTGG 
 Assemble Data 

6540R-1.IR_full       1   ATGGAGCCAATGAATCTGGGCAGCCCGGTCAACAGTCCTGGCTCCAACCAGACCCAGTAT 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     1   ATGGAGCCAATGAATCTGGGCAGCCCGGTCAACAGTCCTGGCTCCAACCAGACCCAGTAT 60


6540R-1.IR_full       61  CTGCCACCTTTTCTGCTCGGCGATCCGCAAGGTATAACGCCGCACAAGAACACGCTGTCC 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     61  CTGCCACCTTTTCTGCTCGGCGATCCGCAAGGTATAACGCCGCACAAGAACACGCTGTCC 120


6540R-1.IR_full       121 CCGAAAACCGGGCGCTCTAATATAAGTTTCGCCACCTCGCCCGGCGGCAGCAGTCCGCAC 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     121 CCGAAAACCGGGCGCTCTAATATAAGTTTCGCCACCTCGCCCGGCGGCAGCAGTCCGCAC 180


6540R-1.IR_full       181 GAGCTCAACCGCTCCGCTCTGAGCACACGCACTCTGTTCGCCGCCCAAGGAGGCGCCCAC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     181 GAGCTCAACCGCTCCGCTCTGAGCACACGCACTCTGTTCGCCGCCCAAGGAGGCGCCCAC 240


6540R-1.IR_full       241 ACGGCTGTGGGCGCCAACAGCTCAACGACCGCGCACGGCCAGACGCACAGCCACCACCAG 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     241 ACGGCTGTGGGCGCCAACAGCTCAACGACCGCGCACGGCCAGACGCACAGCCACCACCAG 300


6540R-1.IR_full       301 ACGGGACCGCCCACCCAGGGACTCTTACGACTCGCTGNGCGAACAGTCCGTCACCCCGAA 360
                          |||||||||||||||||||||||||| |||||||||| ||||||||||||||||||||||
6540R-1.in silico     301 ACGGGACCGCCCACCCAGGGACTCTT-CGACTCGCTGCGCGAACAGTCCGTCACCCCGAA 360


6540R-1.IR_full       361 GAAGAAGAACCATCTTGGCATGCTGCAGTTGCAGTCACCGAACCAGAGCTACCAGAGCAG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6540R-1.in silico     361 GAAGAAGAACCATCTTGGCATGCTGCAGTTGCAGTCACCGAACCAGAGCTACCAGAGCAG 420


6540R-1.IR_full       421 CTATCACACGAATGACTCGTTCGCACCCGGGGCGCCCAATGNCCATCAATGCCTCGATGC 480
                          ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
6540R-1.in silico     421 CTATCACACGAATGACTCGTTCGCACCCGGGGCGCCCAATG-CCATCAATGCCTCGATGC 480


6540R-1.IR_full       481 GAGCACTGTGCTCNANTTTGCCACTTGG 508
                          |||||||||||||      |||||||||
6540R-1.in silico     481 GAGCACTGTGCTC------GCCACTTGG 508



 
 Off-target information (Last Update: November 4, 2007_NCBI RefSeq Release 26)
 Off-target search result

cv : coefficient of variation

(0 mm hits / total siRNA count)

mm : mismatch
cv 0mm 1mm 2mm 3mm target transcript off target name
100   482  0  0  7  NM_133086.2  CG6540-RA (CG6540), mRNA 
0.2   1  4  3  4  NM_132011.1  CG15777-RA (CG15777), mRNA 
0.2   1  3  3  3  NM_132713.1  CG11584-RB (CG11584), mRNA 
0   0  4  4  6  NM_165476.1  CG3161-RD, transcript variant D (Vha16), mRNA 
0   0  4  4  6  NM_165475.1  CG3161-RC, transcript variant C (Vha16), mRNA 
0   0  4  4  6  NM_165474.1  CG3161-RB, transcript variant B (Vha16), mRNA 
0   0  4  4  6  NM_057453.3  CG3161-RA, transcript variant A (Vha16), mRNA 
0   0  4  3  7  NM_133013.1  CG15816-RA (CG15816), mRNA 
0   0  3  5  2  NM_136440.4  CG11139-RA (p47), mRNA 
0   0  2  3  7  NM_165738.1  CG2269-RC, transcript variant C (CG2269), mRNA 
0   0  2  3  7  NM_136709.2  CG2269-RA, transcript variant A (CG2269), mRNA 
0   0  2  3  7  NM_165737.1  CG2269-RB, transcript variant B (CG2269), mRNA 
0   0  2  2  2  NR_002694.1  CR40465, miscRNA 
0   0  1  7  5  NM_058028.3  CG4585-RA (CG4585), mRNA 
0   0  1  3  2  NM_143238.1  CG14249-RB, transcript variant B (beat-VII), mRNA 
0   0  1  3  2  NM_137809.1  CG3292-RA (CG3292), mRNA 
0   0  1  3  2  NM_170283.1  CG14249-RA, transcript variant A (beat-VII), mRNA 
0   0  1  2  4  NM_132734.2  CG9411-RA (CG9411), mRNA 
0   0  1  2  4  NM_134987.1  CG15431-RA (CG15431), mRNA 
0   0  1  2  3  NM_169573.1  CG12207-RA, transcript variant A (CG12207), mRNA 
0   0  1  2  2  NM_166616.1  CG5411-RA, transcript variant A (Pde8), mRNA 
0   0  1  2  2  NM_137970.3  CG5411-RE, transcript variant E (Pde8), mRNA 
0   0  1  2  2  NM_166618.1  CG5411-RB, transcript variant B (Pde8), mRNA 
0   0  1  2  2  NM_166617.1  CG5411-RD, transcript variant D (Pde8), mRNA 
0   0  1  2  2  NM_132221.2  CG2129-RA (CG2129), mRNA 
0   0  1  2  2  NM_141528.1  CG11693-RA (CG11693), mRNA 
0   0  0  6  5  NM_079858.3  CG12070-RA, transcript variant A (Sap-r), mRNA 
0   0  0  6  5  NM_170529.2  CG12070-RB, transcript variant B (Sap-r), mRNA 
0   0  0  5  11  NM_143271.1  CG14257-RA (CG14257), mRNA 
0   0  0  4  8  NM_078880.2  CG10443-RA (Lar), mRNA 
 Wing Disc
GFP
 Puc
 Caspase
DAPI
 Merge
 Figure
JNK signal
N
 
DB
 
DC
+- 
DM
 
VM
 
VB
 
Caspase-3 signal
N
 
DB
 
DC
 
DM
 
VM
 
VB
 
Dcompartment   Penetrance
     

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