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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 6961R-3 
 Symbol CG6961  Full Name CG6961 
 CG No CG6961  Old CG No CG6961 
 Synonyms cg6961, CG6961 
 Accession No (Link to NCBI) NM_133097.1 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees pupal lethal 
 Map Viewer
 Reference
[Please submit your publication] 		Olesnicky EC, Killian DJ, Garcia E, Morton MC, Rathjen AR, Sola IE, Gavis ER.
Extensive use of RNA-binding proteins in Drosophila sensory neuron dendrite morphogenesis.
G3 (Bethesda) (2014) 4(2) 297-306 [ PubMed ID = 24347626 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgATCGATTTGAGTCTGGACGAG 
 Primer Seq. 3' 
aatctagaggtaccAAGCCGGACAACATGTGGTTA 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 ATCGATTTGA GTCTGGACGA GATTATAGAG CGGAAGCGCG GGCAACGCGG CTATCGTCCC 
0061 CTCGACAGAA AGTTCAATGC GAACTTCTCC AAGCCGCGCC AGCTGCTGAA CAAGCCTTTT 
0121 TTCAAGCCAT CGGGTGCACG AGGATCTCAC TCTGATACGC CGGCAAAGCG CACCTTCGAT 
0181 GCCAGAAACA CGATTGCCGC GAAGACACGG GCCAAGATAG CCGATGCTCG GGATCTGATC 
0241 AACAAGAGCG TGCGCGACTC GGGAATCGAT GCCCGCCAGC TGTTGCTGGA GCGAAAGAAG 
0301 GCCCGTTCGG CGGGCCCAAT ACTTATTGAT GACGATAGAA GAGTCGTTTG AGCCATCACA 
0361 TCGCGCACGC GGAAAGGGAG TGCACATCGG TCAGTTTGGT CACCGCCTTA GCATGTCAAA 
0421 CCATGCGGAC GGCACCATTC AGGCGAAATG GGACTCGGAC GACGGGGTCG TTGAACTGGG 
0481 TAACCACATG TTGTCCGGCT T 
 in silico PCR Fragment 
0001 ATCGATTTGA GTCTGGACGA GATTATAGAG CGGAAGCGCG GGCAACGCGG CTATCGTCCC 
0061 CTCGACAGAA AGTTCAATGC GAACTTCTCC AAGCCGCGCC AGCTGCTGAA CAAGCCTTTT 
0121 TTCAAGCCAT CGGGTGCACG AGGATCTCAC TCTGATATGC CGGCAAAGCG CACCTTCGAT 
0181 GCCAGAAACA CGATTGCCGC GAAGACACGG GCCAAGATAG CCGATGCTCG GGATCTGATC 
0241 AACAAGAGCG TGCGCGACTC GGGCATCGAT GCCCGCCAAC TGTTGCTGGA GCGAAAGAAG 
0301 GCCCGTTCGG CGGGCCCAAT ACTTATTGAT GACGA-AGAA GAGTCGTTTG AGCCATCACA 
0361 TCGCGCACGC GGAAAGGGAG TGCACATCGG TCAGTTTGGT CACCGCCTTA GCATGTCAAA 
0421 CCATGCGGAC GGCACCATTC AGGCGAAATG GGACTCGGAC GACGGGGTCG TTGAACTGGG 
0481 TAACCACATG TTGTCCGGCT T 
 Assemble Data 

6961R-3.IR_full       1   ATCGATTTGAGTCTGGACGAGATTATAGAGCGGAAGCGCGGGCAACGCGGCTATCGTCCC 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6961R-3.in silico     1   ATCGATTTGAGTCTGGACGAGATTATAGAGCGGAAGCGCGGGCAACGCGGCTATCGTCCC 60


6961R-3.IR_full       61  CTCGACAGAAAGTTCAATGCGAACTTCTCCAAGCCGCGCCAGCTGCTGAACAAGCCTTTT 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6961R-3.in silico     61  CTCGACAGAAAGTTCAATGCGAACTTCTCCAAGCCGCGCCAGCTGCTGAACAAGCCTTTT 120


6961R-3.IR_full       121 TTCAAGCCATCGGGTGCACGAGGATCTCACTCTGATACGCCGGCAAAGCGCACCTTCGAT 180
                          ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
6961R-3.in silico     121 TTCAAGCCATCGGGTGCACGAGGATCTCACTCTGATATGCCGGCAAAGCGCACCTTCGAT 180


6961R-3.IR_full       181 GCCAGAAACACGATTGCCGCGAAGACACGGGCCAAGATAGCCGATGCTCGGGATCTGATC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6961R-3.in silico     181 GCCAGAAACACGATTGCCGCGAAGACACGGGCCAAGATAGCCGATGCTCGGGATCTGATC 240


6961R-3.IR_full       241 AACAAGAGCGTGCGCGACTCGGGAATCGATGCCCGCCAGCTGTTGCTGGAGCGAAAGAAG 300
                          ||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||||
6961R-3.in silico     241 AACAAGAGCGTGCGCGACTCGGGCATCGATGCCCGCCAACTGTTGCTGGAGCGAAAGAAG 300


6961R-3.IR_full       301 GCCCGTTCGGCGGGCCCAATACTTATTGATGACGATAGAAGAGTCGTTTGAGCCATCACA 360
                          ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
6961R-3.in silico     301 GCCCGTTCGGCGGGCCCAATACTTATTGATGACGA-AGAAGAGTCGTTTGAGCCATCACA 360


6961R-3.IR_full       361 TCGCGCACGCGGAAAGGGAGTGCACATCGGTCAGTTTGGTCACCGCCTTAGCATGTCAAA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6961R-3.in silico     361 TCGCGCACGCGGAAAGGGAGTGCACATCGGTCAGTTTGGTCACCGCCTTAGCATGTCAAA 420


6961R-3.IR_full       421 CCATGCGGACGGCACCATTCAGGCGAAATGGGACTCGGACGACGGGGTCGTTGAACTGGG 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
6961R-3.in silico     421 CCATGCGGACGGCACCATTCAGGCGAAATGGGACTCGGACGACGGGGTCGTTGAACTGGG 480


6961R-3.IR_full       481 TAACCACATGTTGTCCGGCTT 501
                          |||||||||||||||||||||
6961R-3.in silico     481 TAACCACATGTTGTCCGGCTT 501



 
 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  4  NM_133097.1  CG6961-RA (CG6961), mRNA 
80.29   387  95  0  4  NM_133096.1  CG18259-RA (CG18259), mRNA 
0   0  2  3  5  NM_135545.2  CG5366-RA (CG5366), mRNA 
0   0  1  4  2  NM_143498.2  CG7903-RA (CG7903), mRNA 
0   0  1  3  3  NM_134676.1  CG4213-RA (CG4213), mRNA 
0   0  1  3  3  NM_169961.1  CG6376-RB, transcript variant B (E2f), mRNA 
0   0  1  3  3  NM_169962.1  CG6376-RC, transcript variant C (E2f), mRNA 
0   0  1  3  3  NM_079713.2  CG6376-RA, transcript variant A (E2f), mRNA 
0   0  1  3  3  NM_080125.2  CG4399-RB (east), mRNA 
0   0  1  2  3  NM_141494.1  CG10445-RA (CG10445), mRNA 
0   0  1  2  2  NM_206391.1  CG33256-RA (CG33256), mRNA 
0   0  1  2  2  NM_142332.1  CG18213-RA (CG18213), mRNA 
0   0  0  6  6  NM_001014453.1  CG33526-RD, transcript variant D (PNUTS), mRNA 
0   0  0  6  4  NM_170253.2  CG8318-RB, transcript variant B (Nf1), mRNA 
0   0  0  6  4  NM_170252.2  CG8318-RC, transcript variant C (Nf1), mRNA 
0   0  0  6  4  NM_001014668.1  CG8318-RD, transcript variant D (Nf1), mRNA 
0   0  0  5  9  NM_078977.2  CG10897-RA, transcript variant A (tou), mRNA 
0   0  0  5  3  NM_079729.2  CG4792-RA (Dcr-1), mRNA 
0   0  0  5  2  NM_135724.2  CG5427-RA (Oatp33Ea), mRNA 
0   0  0  5  2  NM_079055.2  CG4943-RA (lack), mRNA 
0   0  0  5  2  NM_168487.1  CG32096-RB, transcript variant B (rols), mRNA 
0   0  0  5  2  NM_140285.2  CG32096-RD, transcript variant D (rols), mRNA 
0   0  0  5  2  NM_168490.1  CG32096-RE, transcript variant E (rols), mRNA 
0   0  0  5  2  NM_168488.1  CG32096-RA, transcript variant A (rols), mRNA 
0   0  0  5  2  NM_168489.1  CG32096-RC, transcript variant C (rols), mRNA 
0   0  0  4  8  NM_134544.1  CG11734-RB (HERC2), mRNA 
0   0  0  4  7  NM_169039.2  CG32464-RL, transcript variant L (l(3)82Fd), mRNA 
0   0  0  4  7  NM_143760.2  CG32464-RB, transcript variant B (l(3)82Fd), mRNA 
0   0  0  4  7  NM_001043213.1  CG32464-RP, transcript variant P (l(3)82Fd), mRNA 
0   0  0  4  7  NM_170641.1  CG32464-RF, transcript variant F (l(3)82Fd), mRNA 

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