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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 5439R-1 
 Symbol CG5439  Full Name CG5439 
 CG No CG5439  Old CG No CG5439 
 Synonyms CG5439 
 Accession No (Link to NCBI) NM_135763.2 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees viable 
 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' 
aaggcctacatggccggaccgTTCCGGAGCATGCGCAGCCAA 
 Primer Seq. 3' 
aatctagaggtaccAGTAGCAGGGACCAAGGTGTG 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 TTCCGGAGCA TGCGCAGCNA ACTGGCGGGC AGCACCTTTG GCCAACGGCG CGAGGACATC 
0061 TTTCGACGTC TACAGGAAAG TGCGCATAAA ATCTCACAGA AGTTCAGTGG CAAAGAACTT 
0121 GCCACTGAGC GGGATGAATC TGTTCAGGAA CTGTGCGAAT CCCTCGAGGA ACTAATGTCC 
0181 TACGGACTTA GGCAATCGGC AGGCACTTCC TCCTTNCAGC GCCGCCAGCT TCATCCAGAA 
0241 CATGCAGGAG ATGGTGTCCG GAAATGCGGG CGGAGGCAGC AACAACAATG ACGCCACTTT 
0301 CTGGGAATTC TGCCAGACGC ATTTGACGCC CCACGAACGT CAGAGGTATA TGGACCTTAA 
0361 GCAGATCTGG ACGAATGTGG GCAGAGGACG TGCCTTCATA CGCGCCACAC TGAACGAGAA 
0421 GCGACTGCAT AGCCATGTGC TCACCTGGCT GAGCGACGAG GAGCAGCTGC ATCGATTTTA 
0481 CACACCTTGG TCCCTGCTAC T 
 in silico PCR Fragment 
0001 TTCCGGAGCA TGCGCAGCCA ACTGGCGGGC AGCACCTTTG GCCAACGGCG CGAGGACATC 
0061 TTTCGACGTC TACAGGAAAG TGCGCATAAA ATCTCACAGA AGTTCAGTGG CAAAGAACTT 
0121 GCCACTGAGC GGGATGAATC TGTTCAGGAA CTGTGCGAAT CCCTCGAGGA ACTAATGTCC 
0181 TACGGACTTA GGCAATCGGC AGGCACTTCC TCCTT-CAGC GCCGCCAGCT TCATCCAGAA 
0241 CATGCAGGAG ATGGTGTCCG GAAATGCGGG CGGAGGCAGC AACAACAATG ACGCCACTTT 
0301 CTGGGAATTC TGCCAGACGC ATTTGACGCC CCACGAACGT CAGAGGTATA TGGACCTTAA 
0361 GCAGATCTGG ACGAATGTGG GCAGAGGACG TGCCTTCATA CGCGCCACAC TGAACGAGAA 
0421 GCGACTGCAT AGCCATGTGC TCACCTGGCT GAGCGACGAG GAGCAGCTGC ATCGATTTTA 
0481 CACACCTTGG TCCCTGCTAC T 
 Assemble Data 

5439R-1.IR_full       1   TTCCGGAGCATGCGCAGCNAACTGGCGGGCAGCACCTTTGGCCAACGGCGCGAGGACATC 60
                          |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     1   TTCCGGAGCATGCGCAGCCAACTGGCGGGCAGCACCTTTGGCCAACGGCGCGAGGACATC 60


5439R-1.IR_full       61  TTTCGACGTCTACAGGAAAGTGCGCATAAAATCTCACAGAAGTTCAGTGGCAAAGAACTT 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     61  TTTCGACGTCTACAGGAAAGTGCGCATAAAATCTCACAGAAGTTCAGTGGCAAAGAACTT 120


5439R-1.IR_full       121 GCCACTGAGCGGGATGAATCTGTTCAGGAACTGTGCGAATCCCTCGAGGAACTAATGTCC 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     121 GCCACTGAGCGGGATGAATCTGTTCAGGAACTGTGCGAATCCCTCGAGGAACTAATGTCC 180


5439R-1.IR_full       181 TACGGACTTAGGCAATCGGCAGGCACTTCCTCCTTNCAGCGCCGCCAGCTTCATCCAGAA 240
                          ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
5439R-1.in silico     181 TACGGACTTAGGCAATCGGCAGGCACTTCCTCCTT-CAGCGCCGCCAGCTTCATCCAGAA 240


5439R-1.IR_full       241 CATGCAGGAGATGGTGTCCGGAAATGCGGGCGGAGGCAGCAACAACAATGACGCCACTTT 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     241 CATGCAGGAGATGGTGTCCGGAAATGCGGGCGGAGGCAGCAACAACAATGACGCCACTTT 300


5439R-1.IR_full       301 CTGGGAATTCTGCCAGACGCATTTGACGCCCCACGAACGTCAGAGGTATATGGACCTTAA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     301 CTGGGAATTCTGCCAGACGCATTTGACGCCCCACGAACGTCAGAGGTATATGGACCTTAA 360


5439R-1.IR_full       361 GCAGATCTGGACGAATGTGGGCAGAGGACGTGCCTTCATACGCGCCACACTGAACGAGAA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     361 GCAGATCTGGACGAATGTGGGCAGAGGACGTGCCTTCATACGCGCCACACTGAACGAGAA 420


5439R-1.IR_full       421 GCGACTGCATAGCCATGTGCTCACCTGGCTGAGCGACGAGGAGCAGCTGCATCGATTTTA 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5439R-1.in silico     421 GCGACTGCATAGCCATGTGCTCACCTGGCTGAGCGACGAGGAGCAGCTGCATCGATTTTA 480


5439R-1.IR_full       481 CACACCTTGGTCCCTGCTACT 501
                          |||||||||||||||||||||
5439R-1.in silico     481 CACACCTTGGTCCCTGCTACT 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  0  NM_135763.2  CG5439-RA (CG5439), mRNA 
0   0  4  2  2  NM_176039.1  CG32970-RA (CG32970), mRNA 
0   0  3  6  2  NM_138105.1  CG13594-RA (CG13594), mRNA 
0   0  2  3  7  NM_167033.1  CG3249-RB, transcript variant B (CG3249), mRNA 
0   0  2  3  7  NM_167034.1  CG3249-RC, transcript variant C (CG3249), mRNA 
0   0  2  3  7  NM_131993.3  CG3249-RA, transcript variant A (CG3249), mRNA 
0   0  2  3  3  NM_165507.1  CG12833-RA, transcript variant A (esn), mRNA 
0   0  2  3  3  NM_080251.2  CG12833-RB, transcript variant B (esn), mRNA 
0   0  2  3  2  NM_176480.1  CG33098-RB, transcript variant B (CG33098), mRNA 
0   0  2  3  2  NM_176481.1  CG33098-RC, transcript variant C (CG33098), mRNA 
0   0  2  3  2  NM_176482.1  CG33098-RD, transcript variant D (CG33098), mRNA 
0   0  2  3  2  NM_135169.2  CG9493-RA (Pez), mRNA 
0   0  2  2  5  NM_137096.2  CG8468-RB, transcript variant B (CG8468), mRNA 
0   0  2  2  4  NM_166039.1  CG8468-RC, transcript variant C (CG8468), mRNA 
0   0  2  2  4  NM_166038.1  CG8468-RA, transcript variant A (CG8468), mRNA 
0   0  1  7  7  NM_136645.1  CG13952-RA (CG13952), mRNA 
0   0  1  5  4  NM_170244.1  CG17370-RB, transcript variant B (CG17370), mRNA 
0   0  1  5  4  NM_143180.1  CG17370-RA, transcript variant A (CG17370), mRNA 
0   0  1  5  4  NM_170245.1  CG17370-RC, transcript variant C (CG17370), mRNA 
0   0  1  4  3  NM_057629.3  CG4379-RA, transcript variant A (Pka-C1), mRNA 
0   0  1  4  3  NM_139489.1  CG9977-RA (CG9977), mRNA 
0   0  1  4  3  NM_164866.1  CG4379-RB, transcript variant B (Pka-C1), mRNA 
0   0  1  4  3  NM_205950.1  CG4379-RC, transcript variant C (Pka-C1), mRNA 
0   0  1  3  4  NM_136344.1  CG14470-RA (CG14470), mRNA 
0   0  1  3  3  NM_164776.2  CG7231-RB, transcript variant B (CG7231), mRNA 
0   0  1  3  3  NM_139569.1  CG10858-RA (CG10858), mRNA 
0   0  1  3  3  NM_205923.1  CG7231-RC, transcript variant C (CG7231), mRNA 
0   0  1  3  3  NM_135323.3  CG7231-RA, transcript variant A (CG7231), mRNA 
0   0  1  2  8  NM_139791.1  CG10144-RA (CG10144), mRNA 
0   0  1  2  7  NM_001038944.1  CG8567-RB, transcript variant B (Deaf1), mRNA 

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