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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 3356R-1 
 Symbol CG3356  Full Name CG3356 
 CG No CG3356  Old CG No CG3356 
 Synonyms CG3356 
 Accession No (Link to NCBI) NM_138052.2 
 Inserted Chr. lll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees lethal 
 Map Viewer
 Reference
[Please submit your publication] 		Du J, Zhang J, Su Y, Liu M, Ospina JK, Yang S, Zhu AJ.
In vivo RNAi screen reveals neddylation genes as novel regulators of Hedgehog signaling.
PLoS One (2011) 6(9) e24168 [ PubMed ID = 21931660 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgTGTTCGGATTCGACGGCGAGT 
 Primer Seq. 3' 
aatctagaggtaccTGTTTCCAGCATGCGTAGGGG 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 TGTTCGGATT CGACGGCGAG TAcCGCCGCA AGCCTGTGCA AAGTCTGGGC GGTANAGCCT 
0061 CGcACACCTG CGACCGGGAC ACTGTGATCC GGAAGGCGGC CCTGGAGCGC CAGAAGCGCA 
0121 ACGAGCTGCG CCAGAAGGAG AACGGGGCAG TGGTCCTGCA GTCTTACGCC CGCTCATTCA 
0181 TNCCACCGCC AGCGGCGCAN AGCGGGCGGA ACGGGAAGTT TTCGACATCT ACCTAATGGG 
0241 CCACAAGGAT GGCATCGTGG AGGACGAGAG CCTTACCTTC CTCTTGCGGC GCCTCAACTT 
0301 CTTCTACAGC ATCCGGGAGG CCAAGGACAG CGAGCGACTG ATCGAAGTTT GTCAGCAGAT 
0361 CCTTCGCCAG CCCGCTCGTC TGCTTCAGCA TTCCTCCCCT GACTCATTGT GGCTTCTGAG 
0421 ACTGTGCAAG CTGCTGGACA CTTGCCTGCT ACAGCTTAGC CTGTCGcACA CGGCCCAAGC 
0481 CATTCCCCTA CGCATGCTGG AAACA 
 in silico PCR Fragment 
0001 TGTTCGGATT CGACGGCGAG TACCGCCGCA GGCCTGTGCA AAGTCTGGGC GG---AGCCT 
0061 CGCACACCTG CGACCGGGAC ACTGTGATCC GGAAGGCGGC CCTGGAGCGC CAGAAGCGCA 
0121 ACGAGCTGCG CCAGAAGGAG AACGGGGCAG TGGTCCTGCA GTCTTACGCC CGCTCATTCA 
0181 T-CCACCGCC AGCGGCGCA- AGCGGGCGGA ACGGGAAGTT TTCGACATCT ACCTAATGGG 
0241 CCACAAGGAT GGCATCGTGG AGGACGAGAG CCTTACCTTC CTCTTGCGGC GCCTCAACTT 
0301 CTTCTACAGC ATCCGGGAGG CCAAGGACAG CGAGCGACTG ATCGAAGTTT GTCAGCAGAT 
0361 CCTTCGCCAG CCCGCTCGTC TGCTTCAGCA TTCCTCCCCT GACTCATTGT GGCTTCTGAG 
0421 ACTGTGCAAG CTGCTGGACA CTTGCCTGCT ACAGCTTAGC CTGTCGCACA CGGCCCAAGC 
0481 CATTCCCCTA CGCATGCTGG AAACA 
 Assemble Data 

3356R-1.IR_full       1   TGTTCGGATTCGACGGCGAGTACCGCCGCAAGCCTGTGCAAAGTCTGGGCGGTANAGCCT 60
                          |||||||||||||||||||||||||||||| |||||||||||||||||||||   |||||
3356R-1.in silico     1   TGTTCGGATTCGACGGCGAGTACCGCCGCAGGCCTGTGCAAAGTCTGGGCGG---AGCCT 60


3356R-1.IR_full       61  CGCACACCTGCGACCGGGACACTGTGATCCGGAAGGCGGCCCTGGAGCGCCAGAAGCGCA 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     61  CGCACACCTGCGACCGGGACACTGTGATCCGGAAGGCGGCCCTGGAGCGCCAGAAGCGCA 120


3356R-1.IR_full       121 ACGAGCTGCGCCAGAAGGAGAACGGGGCAGTGGTCCTGCAGTCTTACGCCCGCTCATTCA 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     121 ACGAGCTGCGCCAGAAGGAGAACGGGGCAGTGGTCCTGCAGTCTTACGCCCGCTCATTCA 180


3356R-1.IR_full       181 TNCCACCGCCAGCGGCGCANAGCGGGCGGAACGGGAAGTTTTCGACATCTACCTAATGGG 240
                          | ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     181 T-CCACCGCCAGCGGCGCA-AGCGGGCGGAACGGGAAGTTTTCGACATCTACCTAATGGG 240


3356R-1.IR_full       241 CCACAAGGATGGCATCGTGGAGGACGAGAGCCTTACCTTCCTCTTGCGGCGCCTCAACTT 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     241 CCACAAGGATGGCATCGTGGAGGACGAGAGCCTTACCTTCCTCTTGCGGCGCCTCAACTT 300


3356R-1.IR_full       301 CTTCTACAGCATCCGGGAGGCCAAGGACAGCGAGCGACTGATCGAAGTTTGTCAGCAGAT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     301 CTTCTACAGCATCCGGGAGGCCAAGGACAGCGAGCGACTGATCGAAGTTTGTCAGCAGAT 360


3356R-1.IR_full       361 CCTTCGCCAGCCCGCTCGTCTGCTTCAGCATTCCTCCCCTGACTCATTGTGGCTTCTGAG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     361 CCTTCGCCAGCCCGCTCGTCTGCTTCAGCATTCCTCCCCTGACTCATTGTGGCTTCTGAG 420


3356R-1.IR_full       421 ACTGTGCAAGCTGCTGGACACTTGCCTGCTACAGCTTAGCCTGTCGCACACGGCCCAAGC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3356R-1.in silico     421 ACTGTGCAAGCTGCTGGACACTTGCCTGCTACAGCTTAGCCTGTCGCACACGGCCCAAGC 480


3356R-1.IR_full       481 CATTCCCCTACGCATGCTGGAAACA 505
                          |||||||||||||||||||||||||
3356R-1.in silico     481 CATTCCCCTACGCATGCTGGAAACA 505



 
 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  0  NM_138052.2  CG3356-RA (CG3356), mRNA 
0   0  4  5  2  NM_140368.1  CG11253-RA (CG11253), mRNA 
0   0  3  4  3  NM_078983.2  CG8439-RA, transcript variant A (Cct5), mRNA 
0   0  2  5  4  NM_136580.1  CG8243-RA (CG8243), mRNA 
0   0  2  3  5  NM_142466.2  CG12333-RA (CG12333), mRNA 
0   0  2  3  4  NM_132765.1  CG5548-RA (CG5548), mRNA 
0   0  2  3  2  NM_079691.2  CG4217-RA, transcript variant A (TFAM), mRNA 
0   0  2  3  2  NM_169906.1  CG4217-RB, transcript variant B (TFAM), mRNA 
0   0  2  2  3  NM_057614.2  CG4926-RA (Ror), mRNA 
0   0  2  2  2  NM_167170.1  CG10701-RC, transcript variant C (Moe), mRNA 
0   0  2  2  2  NM_167169.1  CG10701-RA, transcript variant A (Moe), mRNA 
0   0  2  2  2  NM_167168.1  CG10701-RB, transcript variant B (Moe), mRNA 
0   0  2  2  2  NM_080343.2  CG10701-RD, transcript variant D (Moe), mRNA 
0   0  2  2  2  NM_206664.1  CG10701-RJ, transcript variant J (Moe), mRNA 
0   0  2  2  2  NM_206665.1  CG10701-RI, transcript variant I (Moe), mRNA 
0   0  2  2  2  NM_206669.1  CG10701-RE, transcript variant E (Moe), mRNA 
0   0  2  2  2  NM_206666.1  CG10701-RH, transcript variant H (Moe), mRNA 
0   0  2  2  2  NM_206668.1  CG10701-RF, transcript variant F (Moe), mRNA 
0   0  2  2  2  NM_206667.1  CG10701-RG, transcript variant G (Moe), mRNA 
0   0  2  2  2  NM_134725.1  CG4552-RA (CG4552), mRNA 
0   0  1  6  2  NM_140912.2  CG7654-RA (Tom20), mRNA 
0   0  1  5  5  NM_205898.1  CG33281-RA (CG33281), mRNA 
0   0  1  5  4  NM_140813.2  CG6846-RA (RpL26), mRNA 
0   0  1  3  5  NM_141435.2  CG1939-RA (CG1939), mRNA 
0   0  1  3  4  NM_169707.1  CG4006-RB, transcript variant B (Akt1), mRNA 
0   0  1  3  4  NM_169706.1  CG4006-RA, transcript variant A (Akt1), mRNA 
0   0  1  3  4  NM_169705.1  CG4006-RC, transcript variant C (Akt1), mRNA 
0   0  1  3  2  NM_057961.4  CG3771-RA (a6), mRNA 
0   0  1  2  9  NM_132274.2  CG1785-RA (CG1785), mRNA 
0   0  1  2  6  NM_001043242.1  CG14714-RB, transcript variant B (CG14714), mRNA 

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