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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 5964R-3 
 Symbol CG5964  Full Name CG5964 
 CG No CG5964  Old CG No CG5964 
 Synonyms CG5964 
 Accession No (Link to NCBI) NM_140250.1 
 Inserted Chr. X 
 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' 
aaggcctacatggccggaccgTCAACGACGATCCACTGGCTG 
 Primer Seq. 3' 
aatctagaggtaccTCTGCCGGTAGAAGTCTTGGG 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 TCAACGACGA TCCACTGGCT GAACTGCTCA GCGATAATAG CCTGGATAAT GACAACTTCT 
0061 TTGAGACGCC AGCGGGAGTG GGTCACAAGA AGCCAGCCAA ATTGGCGAAG NCCAAGGGAA 
0121 AACTGGAGGA TTTGTTTGGG ATTCAGGAGG AGACGGAGGC GGATGTCCAG GGACAGGGAA 
0181 CGGGTGCCAG AAAGACACCC AATGCCATCA GCACGCCGAG AATTGTGAAG CAGAAGCCAT 
0241 CTATCTCACT GGATGATGAT CTGGTCGAGG ACGATGACTT GGGTTTTGAT CCCAAACGAC 
0301 CCAAGAGTGG CGGCACCAAA AGGAGCCTTT TCGATGATCT GTTGACCAGC AACGCGGAGC 
0361 CCAAGAAAAA CATTTTCGAT GAGATTCTGG CGGGAGATGC CGTCAAACGT CCGGCCACTA 
0421 GCAAACCATC CATGTCGCGC CAATCCACGG ACACCACCAC GGACAAcTCG CAgGCGAGGC 
0481 CCAAGACTTC TACCGGCAGA  
 in silico PCR Fragment 
0001 TCAACGACGA TCCACTGGCT GAACTGCTCA GCGATAATAG CCTGGATAAT GACAACTTCT 
0061 TTGAGACGCC AGCGGGAGTG GGTCACAAGA AGCCAGCCAA ATTGGCGAAG CCCAAGGGAA 
0121 AACTGGAGGA TTTGTTTGGG ATTCAGGAGG AGACGGAGGC GGATGTCCAG GGACAGGGAA 
0181 CGGGTGCCAG AAAGACACCC AATGCCATCA GCACGCCGAG AATTGTGAAG CAGAAGCCAT 
0241 CTATCTCACT GGATGATGAT CTGGTCGAGG ACGATGACTT GGGTTTTGAT CCCAAACGAC 
0301 CCAAGAGTGG CGGCACCAAA AGGAGCCTTT TCGATGATCT GTTGACCAGC AACGCGGAGC 
0361 CCAAGAAAAA CATTTTCGAT GAGATTCTGG CGGGAGATGC CGTCAAACGT CCGGCCACTA 
0421 GCAAACCATC CATGTCGCGC CAATCCACGG ACACCACCAC GGACAACTCG CAGGCGAGGC 
0481 CCAAGACTTC TACCGGCAGA  
 Assemble Data 
<PRE>

5964R-3.IR_full       1   TCAACGACGATCCACTGGCTGAACTGCTCAGCGATAATAGCCTGGATAATGACAACTTCT 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     1   TCAACGACGATCCACTGGCTGAACTGCTCAGCGATAATAGCCTGGATAATGACAACTTCT 60


5964R-3.IR_full       61  TTGAGACGCCAGCGGGAGTGGGTCACAAGAAGCCAGCCAAATTGGCGAAG<span class="snp"><tt>N</tt></span>CCAAGGGAA 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||
5964R-3.in silico     61  TTGAGACGCCAGCGGGAGTGGGTCACAAGAAGCCAGCCAAATTGGCGAAG<span class="snp"><tt>C</tt></span>CCAAGGGAA 120


5964R-3.IR_full       121 AACTGGAGGATTTGTTTGGGATTCAGGAGGAGACGGAGGCGGATGTCCAGGGACAGGGAA 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     121 AACTGGAGGATTTGTTTGGGATTCAGGAGGAGACGGAGGCGGATGTCCAGGGACAGGGAA 180


5964R-3.IR_full       181 CGGGTGCCAGAAAGACACCCAATGCCATCAGCACGCCGAGAATTGTGAAGCAGAAGCCAT 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     181 CGGGTGCCAGAAAGACACCCAATGCCATCAGCACGCCGAGAATTGTGAAGCAGAAGCCAT 240


5964R-3.IR_full       241 CTATCTCACTGGATGATGATCTGGTCGAGGACGATGACTTGGGTTTTGATCCCAAACGAC 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     241 CTATCTCACTGGATGATGATCTGGTCGAGGACGATGACTTGGGTTTTGATCCCAAACGAC 300


5964R-3.IR_full       301 CCAAGAGTGGCGGCACCAAAAGGAGCCTTTTCGATGATCTGTTGACCAGCAACGCGGAGC 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     301 CCAAGAGTGGCGGCACCAAAAGGAGCCTTTTCGATGATCTGTTGACCAGCAACGCGGAGC 360


5964R-3.IR_full       361 CCAAGAAAAACATTTTCGATGAGATTCTGGCGGGAGATGCCGTCAAACGTCCGGCCACTA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     361 CCAAGAAAAACATTTTCGATGAGATTCTGGCGGGAGATGCCGTCAAACGTCCGGCCACTA 420


5964R-3.IR_full       421 GCAAACCATCCATGTCGCGCCAATCCACGGACACCACCACGGACAACTCGCAGGCGAGGC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5964R-3.in silico     421 GCAAACCATCCATGTCGCGCCAATCCACGGACACCACCACGGACAACTCGCAGGCGAGGC 480


5964R-3.IR_full       481 CCAAGACTTCTACCGGCAGA 500
                          ||||||||||||||||||||
5964R-3.in silico     481 CCAAGACTTCTACCGGCAGA 500

</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   482  0  0  0  NM_140250.1  CG5964-RA (CG5964), mRNA 
0.2   1  2  2  7  NM_138041.2  CG4049-RA (CG4049), mRNA 
0   0  3  3  4  NM_140403.1  CG10711-RA (CG10711), mRNA 
0   0  3  2  5  NM_135019.1  CG15627-RA (CG15627), mRNA 
0   0  3  2  3  NM_167838.1  CG17129-RC, transcript variant C (CG17129), mRNA 
0   0  3  2  3  NM_138204.2  CG17129-RA, transcript variant A (CG17129), mRNA 
0   0  3  2  3  NM_167837.1  CG17129-RB, transcript variant B (CG17129), mRNA 
0   0  3  2  3  NM_143572.2  CG12045-RA (CG12045), mRNA 
0   0  2  4  5  NM_134718.4  CG31795-RA, transcript variant A (ia2), mRNA 
0   0  2  2  6  NM_166315.1  CG12758-RB, transcript variant B (sano), mRNA 
0   0  2  2  6  NM_166314.1  CG12758-RA, transcript variant A (sano), mRNA 
0   0  2  2  6  NM_079064.2  CG12758-RD, transcript variant D (sano), mRNA 
0   0  2  2  6  NM_166316.1  CG12758-RC, transcript variant C (sano), mRNA 
0   0  2  2  5  NM_176035.2  CG32975-RA, transcript variant A (nAcRalpha-34E), mRNA 
0   0  2  2  5  NM_205986.1  CG32975-RB, transcript variant B (nAcRalpha-34E), mRNA 
0   0  2  2  5  NM_205985.1  CG32975-RC, transcript variant C (nAcRalpha-34E), mRNA 
0   0  2  2  2  NM_135211.2  CG31634-RA (Oatp26F), mRNA 
0   0  2  2  2  NM_169474.1  CG31355-RA (CG31355), mRNA 
0   0  1  7  4  NM_133145.2  CG8010-RA (CG8010), mRNA 
0   0  1  6  14  NM_137950.1  CG9815-RA (CG9815), mRNA 
0   0  1  4  5  NM_164605.1  CG8886-RB, transcript variant B (l(2)05714), mRNA 
0   0  1  4  5  NM_143776.3  CG8886-RA, transcript variant A (l(2)05714), mRNA 
0   0  1  3  6  NM_080253.2  CG5067-RA (cic), mRNA 
0   0  1  2  9  NM_170629.2  CG32352-RC, transcript variant C (CG32352), mRNA 
0   0  1  2  9  NM_168279.2  CG32352-RA, transcript variant A (CG32352), mRNA 
0   0  1  2  9  NM_168278.1  CG32352-RB, transcript variant B (CG32352), mRNA 
0   0  1  2  8  NM_001015182.1  CG40497-PB.3 (CG40497), mRNA 
0   0  1  2  8  NM_001015183.1  CG40497-PA.3 (CG40497), mRNA 
0   0  1  2  7  NM_001015362.1  CG41101-PA.3 (CG41101), mRNA 
0   0  1  2  5  NM_143608.1  CG1607-RA, transcript variant A (CG1607), mRNA 
 Pathways (updated: 2024/04/26)
 KEGG Pathway

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