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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 5557R-1 
 Symbol sqz  Full Name squeeze 
 CG No CG5557  Old CG No CG5557 
 Synonyms CG5557, l(3)02102, anon-WO0118547.697, sqz, Sqz 
 Accession No (Link to NCBI) NM_079679.2 
 Inserted Chr. lll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees viable 
 Map Viewer
 Reference
[Please submit your publication]
Cho Y, Lai CM, Lin KY, Hsu HJ.
A Targeted RNAi Screen Reveals Drosophila Female-Sterile Genes That Control the Size of Germline Stem Cell Niche During Development.
G3 (Bethesda) (2018) 8(7) 2345-2354 [ PubMed ID = 29764959 ] [ RRC reference ]

Nitta Y, Yamazaki D, Sugie A, Hiroi M, Tabata T.
DISCO Interacting Protein 2 regulates axonal bifurcation and guidance of Drosophila mushroom body neurons.
Dev Biol (2017) 421(2) 233-244 [ PubMed ID = 27908785 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5'
aaggcctacatggccggaccgTCCCCAGCGGCGATTATCTGC 
 Primer Seq. 3'
aatctagaggtaccCGTGTGCTGCGACAGGTACGA 
 Predicted Fragment Size
500 
 IR fragment full Seq
0001 TCCCCAGCGG CGATTATCTG CACCGCTCCA TCGATCAGCT GCGTTCGCTG GGTCATCTGA 
0061 CCACCGCCCA ATTGGTTCAC GACTACAAGC CCTTCAACAT TAGCGAATTC CGGCAGAATG 
0121 TCGCTGAGCG ACTGGACTAC TCGCTGAAGA ACGGCCTGGT GCAGCACCAA CAGCAAATGG 
0181 TCATGGAGCG GCAGCCACAT CCCGATCAGC AGCAGCAGCA GCATCTGCAT CACCCGCAAC 
0241 AGCAGCAGCA CCCCGCCGCA GCTGAAGGTC AGCTACAGTG CGCCCAACTC GCCGCCCACT 
0301 CCACACGAGC AGCAGGAACA GAAGTACGAC CCGAATCGAT CGCCGCCGCG TCAGCAGNAT 
0361 GAGCAGCGCT AGCGGCAGTG GCAGCAACGG CTCCTCGCCT GAGGAGGAAA GCCGCCGGGG 
0421 AGACGGTGAT CAGGCCAAGC CCTACAAGTG TGGCTCGTGC AGCAAGTCCT TTGCCAACTC 
0481 CTCGTACCTG TCGCAGCACA CG 
 in silico PCR Fragment
0001 TCCCCAGCGG CGATTATCTG CACCGCTCCA TCGATCAGCT GCGTTCGCTG GGTCATCTGA 
0061 CCACCGCCCA ATTGGTTCAC GACTACAAGC CCTTCAACAT TAGCGAATTC CGGCAGAATG 
0121 TCGCTGAGCG ACTGGACTAC TCGCTGAAGA ACGGCCTGGT GCAGCACCAA CAGCAAATGG 
0181 TCATGGAGCA GCAGCCACAT CCCGATCAGC AGCAGCAGCA GCATCTGCAT CACCCGCAAC 
0241 AGCAGCAGCA -CCCGCCGCA GCTGAAGGTC AGCTACAGTG CGCCCAACTC GCCGCCCACT 
0301 CCACACGAGC AGCAGGAACA GAAGTACGAC CCGAATCGAT CGCCGCCGCG TCAGCAG-AT 
0361 GAGCAGCGCT AGCGGCAGTG GCAGCAACGG CTCCTCGCCT GAGGAGGAAA GCCGACGGGG 
0421 AGACGGTGAT CAGGCCAAGC CCTACAAGTG TGGCTCGTGC AGCAAGTCCT TTGCCAACTC 
0481 CTCGTACCTG TCGCAGCACA CG 
 Assemble Data

5557R-1.IR_full       1   TCCCCAGCGGCGATTATCTGCACCGCTCCATCGATCAGCTGCGTTCGCTGGGTCATCTGA 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     1   TCCCCAGCGGCGATTATCTGCACCGCTCCATCGATCAGCTGCGTTCGCTGGGTCATCTGA 60


5557R-1.IR_full       61  CCACCGCCCAATTGGTTCACGACTACAAGCCCTTCAACATTAGCGAATTCCGGCAGAATG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     61  CCACCGCCCAATTGGTTCACGACTACAAGCCCTTCAACATTAGCGAATTCCGGCAGAATG 120


5557R-1.IR_full       121 TCGCTGAGCGACTGGACTACTCGCTGAAGAACGGCCTGGTGCAGCACCAACAGCAAATGG 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     121 TCGCTGAGCGACTGGACTACTCGCTGAAGAACGGCCTGGTGCAGCACCAACAGCAAATGG 180


5557R-1.IR_full       181 TCATGGAGCGGCAGCCACATCCCGATCAGCAGCAGCAGCAGCATCTGCATCACCCGCAAC 240
                          ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     181 TCATGGAGCAGCAGCCACATCCCGATCAGCAGCAGCAGCAGCATCTGCATCACCCGCAAC 240


5557R-1.IR_full       241 AGCAGCAGCACCCCGCCGCAGCTGAAGGTCAGCTACAGTGCGCCCAACTCGCCGCCCACT 300
                          |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     241 AGCAGCAGCA-CCCGCCGCAGCTGAAGGTCAGCTACAGTGCGCCCAACTCGCCGCCCACT 300


5557R-1.IR_full       301 CCACACGAGCAGCAGGAACAGAAGTACGACCCGAATCGATCGCCGCCGCGTCAGCAGNAT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
5557R-1.in silico     301 CCACACGAGCAGCAGGAACAGAAGTACGACCCGAATCGATCGCCGCCGCGTCAGCAG-AT 360


5557R-1.IR_full       361 GAGCAGCGCTAGCGGCAGTGGCAGCAACGGCTCCTCGCCTGAGGAGGAAAGCCGCCGGGG 420
                          |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
5557R-1.in silico     361 GAGCAGCGCTAGCGGCAGTGGCAGCAACGGCTCCTCGCCTGAGGAGGAAAGCCGACGGGG 420


5557R-1.IR_full       421 AGACGGTGATCAGGCCAAGCCCTACAAGTGTGGCTCGTGCAGCAAGTCCTTTGCCAACTC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5557R-1.in silico     421 AGACGGTGATCAGGCCAAGCCCTACAAGTGTGGCTCGTGCAGCAAGTCCTTTGCCAACTC 480


5557R-1.IR_full       481 CTCGTACCTGTCGCAGCACACG 502
                          ||||||||||||||||||||||
5557R-1.in silico     481 CTCGTACCTGTCGCAGCACACG 502

 
 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  18  101  NM_079679.2  CG5557-RA (sqz), mRNA 
1.03   42  130  NM_079178.2  CG1921-RB, transcript variant B (sty), mRNA 
1.03   42  130  NM_168031.1  CG1921-RC, transcript variant C (sty), mRNA 
1.03   20  87  NM_167374.1  CG32632-RB (Tango13), mRNA 
1.03   13  64  NM_079616.2  CG7771-RA, transcript variant A (sim), mRNA 
1.03   13  64  NM_169495.2  CG7771-RB, transcript variant B (sim), mRNA 
0.82   10  34  NM_165091.1  CG31775-RA (CG31775), mRNA 
0.62   28  121  336  NM_079218.2  CG10491-RA, transcript variant A (vn), mRNA 
0.62   28  121  336  NM_001014565.1  CG10491-RB, transcript variant B (vn), mRNA 
0.62   22  61  292  NM_132235.2  CG32717-RB, transcript variant B (sdt), mRNA 
0.62   20  95  249  NM_134763.1  CG14351-RA (CG14351), mRNA 
0.62   15  46  NM_167022.1  CG32771-RA (CG32771), mRNA 
0.41   26  90  303  NM_078601.2  CG9533-RA (rut), mRNA 
0.41   22  54  155  NM_206750.1  CG15603-RA (CG15603), mRNA 
0.41   17  73  224  NM_132351.1  CG1343-RA, transcript variant A (Sp1), mRNA 
0.41   17  73  224  NM_167200.1  CG1343-RB, transcript variant B (Sp1), mRNA 
0.41   16  52  209  NM_143745.2  CG18389-RA (Eip93F), mRNA 
0.41   15  84  323  NM_166873.1  CG3638-RB, transcript variant B (CG3638), mRNA 
0.41   15  84  323  NM_166872.1  CG3638-RD, transcript variant D (CG3638), mRNA 
0.41   15  84  323  NM_130541.3  CG3638-RC, transcript variant C (CG3638), mRNA 
0.41   15  84  323  NM_166874.1  CG3638-RA, transcript variant A (CG3638), mRNA 
0.41   15  61  195  NM_001014681.1  CG33553-RD, transcript variant D (Doa), mRNA 
0.41   15  61  195  NM_001043298.1  CG33553-RH, transcript variant H (Doa), mRNA 
0.41   15  60  185  NM_001014679.1  CG33553-RC, transcript variant C (Doa), mRNA 
0.41   15  41  210  NM_206653.1  CG32717-RE, transcript variant E (sdt), mRNA 
0.41   15  41  210  NM_132236.3  CG32717-RA, transcript variant A (sdt), mRNA 
0.41   14  57  283  NM_170094.2  CG13598-RA, transcript variant A (sba), mRNA 
0.41   14  57  281  NM_176549.1  CG13598-RB, transcript variant B (sba), mRNA 
0.41   13  65  175  NM_001032408.1  CG33956-RD, transcript variant D (kay), mRNA 
0.41   13  57  209  NM_136477.2  CG30497-RA, transcript variant A (CG30497), mRNA 

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