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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 11560R-3 
 Symbol CG11560  Full Name CG11560 
 CG No CG11560  Old CG No CG11560 
 Synonyms CG11560 
 Accession No (Link to NCBI) NM_140290.2 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees viable 
 Map Viewer
 Reference
[Please submit your publication] 		Tiwari P, Kumar A, Das RN, Malhotra V, VijayRaghavan K.<br> A Tendon Cell Specific RNAi Screen Reveals Novel Candidates Essential for Muscle Tendon Interaction.<br> PLoS One (2015) 10(10) e0140976 [ PubMed ID = 26488612 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgATGTTTTTCATACACGCCCCC 
 Primer Seq. 3' 
aatctagaggtaccTGATTTCAGAGTCTGCTCCTC 
 Predicted Fragment Size 
489 
 IR fragment full Seq 
0001 ATGTTTTTTC ATACACGCCC CCGAGGAGGA GAAGTGCATG GAGGCGCAGC TGGACATCCT 
0061 TATGAAGATC AACTCCGGTG AATATCGGCT GGTGAAGAAG AACAAGCGCA GTTCCGTTTG 
0121 GAACGTCTAC CGGGAAATCG CTCGTCCGGA CGGCACCAAG TTGAAATGGC GATACTTCTG 
0181 CATGGGCTGC AAGCGTGTGA TGCAAAGCAC CGGCGGCACC ACCTCCAATC TGCGCATCCA 
0241 CAAGTGCCAC GTACGGTATA TCAAGCAGAA CGGCCATCTC ACCGACGGCA GTCACTTCTA 
0301 CGACCATGAT CCCGCGCCAC CAGCTAGCCA ACCGTCGCCG CGCGTCCAGA AACCGAAGAC 
0361 CAGGCGGCCG ACATCCTATT CTACGCAGTG TGAGCAGTTC TATGAGGTCA CCATGGATCC 
0421 GGAGACCCAG TACAGCGATC TGGATGATGA GATTGAGGCT TCTTTGGAGG AGGAGCAGAC 
0481 TCTGAAATCA  
 in silico PCR Fragment 
0001 ATG-TTTTTC ATACACGCCC CCGAGGAGGA GAAGTGCATG GAGGCGCAGC TGGACATCCT 
0061 TATGAAGATC AACTCCGGTG AATATCGGCT GGTGAAGAAG AACAAGCGCA GTTCCGTTTG 
0121 GAACGTCTAC CGGGAAATCG CTCGTCCGGA CGGCACCAAG TTGAAATGGC GATACTTCTG 
0181 CATGGGCTGC AAGCGTGTGA TGCAGAGCAC CGGCGGCACC ACCTCCAATC TGCGCATCCA 
0241 CAAGTGCCAC GTACGGTATA TCAAGCAGAA CGGCCATCTC ACCGACGGCA GTCACTCCTA 
0301 CGACCATGAT CCCGCGCCAC CAGCTAGCCA ACCGTCGCCG CGCGTCCAGA AACCGAAGAC 
0361 CAGGCGGCCG ACATCCTATT CTACGCAGTG TGAGCAGTTC TATGAGGTCA CCATGGATCC 
0421 GGAGACCCAG TACAGCGATC TGGATGATGA GATTGAGGCT TCTTTGGAGG AGGAGCAGAC 
0481 TCTGAAATCA  
 Assemble Data 
<PRE>

11560R-3.IR_full       1   ATG<span class="snp"><tt>T</tt></span>TTTTTCATACACGCCCCCGAGGAGGAGAAGTGCATGGAGGCGCAGCTGGACATCCT 60
                           |||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     1   ATG<span class="snp"><tt>-</tt></span>TTTTTCATACACGCCCCCGAGGAGGAGAAGTGCATGGAGGCGCAGCTGGACATCCT 60


11560R-3.IR_full       61  TATGAAGATCAACTCCGGTGAATATCGGCTGGTGAAGAAGAACAAGCGCAGTTCCGTTTG 120
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     61  TATGAAGATCAACTCCGGTGAATATCGGCTGGTGAAGAAGAACAAGCGCAGTTCCGTTTG 120


11560R-3.IR_full       121 GAACGTCTACCGGGAAATCGCTCGTCCGGACGGCACCAAGTTGAAATGGCGATACTTCTG 180
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     121 GAACGTCTACCGGGAAATCGCTCGTCCGGACGGCACCAAGTTGAAATGGCGATACTTCTG 180


11560R-3.IR_full       181 CATGGGCTGCAAGCGTGTGATGCA<span class="snp"><tt>A</tt></span>AGCACCGGCGGCACCACCTCCAATCTGCGCATCCA 240
                           ||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||
11560R-3.in silico     181 CATGGGCTGCAAGCGTGTGATGCA<span class="snp"><tt>G</tt></span>AGCACCGGCGGCACCACCTCCAATCTGCGCATCCA 240


11560R-3.IR_full       241 CAAGTGCCACGTACGGTATATCAAGCAGAACGGCCATCTCACCGACGGCAGTCACT<span class="snp"><tt>T</tt></span>CTA 300
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||
11560R-3.in silico     241 CAAGTGCCACGTACGGTATATCAAGCAGAACGGCCATCTCACCGACGGCAGTCACT<span class="snp"><tt>C</tt></span>CTA 300


11560R-3.IR_full       301 CGACCATGATCCCGCGCCACCAGCTAGCCAACCGTCGCCGCGCGTCCAGAAACCGAAGAC 360
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     301 CGACCATGATCCCGCGCCACCAGCTAGCCAACCGTCGCCGCGCGTCCAGAAACCGAAGAC 360


11560R-3.IR_full       361 CAGGCGGCCGACATCCTATTCTACGCAGTGTGAGCAGTTCTATGAGGTCACCATGGATCC 420
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     361 CAGGCGGCCGACATCCTATTCTACGCAGTGTGAGCAGTTCTATGAGGTCACCATGGATCC 420


11560R-3.IR_full       421 GGAGACCCAGTACAGCGATCTGGATGATGAGATTGAGGCTTCTTTGGAGGAGGAGCAGAC 480
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11560R-3.in silico     421 GGAGACCCAGTACAGCGATCTGGATGATGAGATTGAGGCTTCTTTGGAGGAGGAGCAGAC 480


11560R-3.IR_full       481 TCTGAAATCA 490
                           ||||||||||
11560R-3.in silico     481 TCTGAAATCA 490

</PRE>
 
 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   471  0  0  0  NM_140290.2  CG11560-RA (CG11560), mRNA 
0.21   1  5  2  4  NM_132218.1  CG2120-RA (CG2120), mRNA 
0   0  13  15  14  NM_140289.2  CG17153-RA (CG17153), mRNA 
0   0  2  2  4  NM_164737.1  CG31630-RA (CG31630), mRNA 
0   0  2  2  3  NM_169170.1  CG1070-RC, transcript variant C (Alh), mRNA 
0   0  1  6  7  NM_165485.1  CG9432-RB, transcript variant B (l(2)01289), mRNA 
0   0  1  6  7  NM_001043010.1  CG9432-RD, transcript variant D (l(2)01289), mRNA 
0   0  1  6  4  NM_132953.1  CG13001-RA (CG13001), mRNA 
0   0  1  6  2  NM_080335.2  CG2984-RA (Pp2C1), mRNA 
0   0  1  4  3  NM_132782.1  CG15030-RA (CG15030), mRNA 
0   0  1  4  2  NM_135651.2  CG4751-RA (CG4751), mRNA 
0   0  1  3  7  NM_136950.2  CG8818-RA (CG8818), mRNA 
0   0  1  3  5  NM_133066.1  CG6290-RA (CG6290), mRNA 
0   0  1  3  3  NM_136875.2  CG17509-RA (CG17509), mRNA 
0   0  1  3  2  NM_057403.3  CG5753-RA, transcript variant A (stau), mRNA 
0   0  1  3  2  NM_166263.1  CG5753-RB, transcript variant B (stau), mRNA 
0   0  1  3  2  NM_143449.1  CG18110-RA (CG18110), mRNA 
0   0  1  2  10  NM_139361.1  CG12090-RB, transcript variant B (CG12090), mRNA 
0   0  1  2  10  NM_167888.1  CG12090-RC, transcript variant C (CG12090), mRNA 
0   0  1  2  10  NM_167889.1  CG12090-RA, transcript variant A (CG12090), mRNA 
0   0  1  2  5  NM_141839.2  CG14712-RA (CG14712), mRNA 
0   0  1  2  4  NM_168104.1  CG32237-RA (CG32237), mRNA 
0   0  1  2  3  NM_137632.3  CG8929-RA, transcript variant A (CG8929), mRNA 
0   0  1  2  3  NM_166389.1  CG8929-RB, transcript variant B (CG8929), mRNA 
0   0  1  2  3  NM_166390.1  CG8929-RC, transcript variant C (CG8929), mRNA 
0   0  1  2  2  NM_057884.4  CG3478-RA (ppk), mRNA 
0   0  0  8  3  NM_140778.2  CG7313-RA (CheA75a), mRNA 
0   0  0  5  4  NM_169761.1  CG31190-RA, transcript variant A (CG31190), mRNA 
0   0  0  5  4  NM_206504.1  CG31190-RB, transcript variant B (CG31190), mRNA 
0   0  0  5  4  NM_139857.2  CG32380-RA, transcript variant A (SMSr), mRNA 
 Pathways (updated: 2024/04/26)
 KEGG Pathway

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