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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 9343R-1 
 Symbol Trl  Full Name Trithorax-like 
 CG No CG33261  Old CG No CG9343 
 Synonyms GAF, CG9343, GAGA, trl, Trl-GAGA, E(var)3-trl, Nc70F, Adf-2-519, TfGAGA/Adf-2, CG33261, E(var)62, Gaga, unnamed, Gaf, Adf-2, Adf2, NC70F, l(3)s2325, anon-EST:fe2E12, Trl, gaga 
 Accession No (Link to NCBI) NM_206358.2 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees larval lethal 
 Map Viewer
 Reference
[Please submit your publication]
Cho Y, Lai CM, Lin KY, Hsu HJ.<br> A Targeted <i>RNAi</i> Screen Reveals <i>Drosophila</i> Female-Sterile Genes That Control the Size of Germline Stem Cell Niche During Development.<br> G3 (Bethesda) (2018) 8(7) 2345-2354 [ PubMed ID = 29764959 ] [ RRC reference ]

Strutt H, Searle E, Thomas-Macarthur V, Brookfield R, Strutt D.<br> A Cul-3-BTB ubiquitylation pathway regulates junctional levels and asymmetry of core planar polarity proteins.<br> Development (2013) 140(8) 1693-702 [ PubMed ID = 23487316 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5'
aaggcctacatggccggaccgGCCTCGTATCGGCAATCCAAT 
 Primer Seq. 3'
aatctagaggtaccTTGTCCTGCTGCGTTGGTCTG 
 Predicted Fragment Size
500 
 IR fragment full Seq
0001 gCCNCGCTAT CGGCAATCCA ATTGTTGCGC TGCCATGGCG ACCTCGTCGA TTGCACGTTG 
0061 GCCGCCGGCg GGCGGAGTTT TCCCGCCCAC AAGATAGTCC TGTGCGCCGC CTCCCCCTTT 
0121 CTGCTGGACT TGCTAAAGAA TACACCATGC AAGCATCCAG TGGTTATGTT GGCTGGCGTC 
0181 AATGCGAACG ATCTGGAGGC GCTGCTGGAG TTTGTGTACC GCGGAGAGGT GAGCGTGGAT 
0241 CACGCCCAGC TGCCGTCGCT ACTGCAGGCT GCCCAGTGCC TGAACATCCA GGGACTGGCA 
0301 CCGCAGACGG TTACCAAGGA CGACTACACC ACGCACTCGA TACAACTGCA GCACATGATT 
0361 CCACAACATC ACGACCAAGA CCAACTGATT GCCACGATcG NCACGGCTCC ACAGCAAACG 
0421 GTTCATGCCC AGGTGGTGGA GGACATCCAT CATCAGGGCC AGATTCTCCA GGCAACGACC 
0481 CAGACCaACG CAGCAGGACA A 
 in silico PCR Fragment
0001 GCCTCG-TAT CGGCAATCCA ATTGTTGCGC TGCCATGGCG ACCTCGTCGA TTGCACGTTG 
0061 GCCGCCGGCG GGCGGAGTTT TCCCGCCCAC AAGATAGTCC TGTGCGCCGC CTCCCCCTTT 
0121 CTGCTGGACT TGCTAAAGAA TACACCATGC AAGCATCCAG TGGTTATGTT GGCTGGCGTC 
0181 AATGCGAACG ATCTGGAGGC GCTGCTGGAG TTTGTGTACC GCGGAGAGGT GAGCGTGGAT 
0241 CACGCCCAGC TGCCGTCGCT ACTGCAGGCT GCCCAGTGCC TGAACATCCA GGGACTGGCA 
0301 CCGCAGACGG TTACCAAGGA CGACTACACC ACGCACTCGA TACAACTGCA GCACATGATT 
0361 CCACAACATC ACGACCAAGA CCAACTGATT GCCACGATCG CCACGGCTCC ACAGCAAACG 
0421 GTTCATGCCC AGGTGGTGGA GGACATCCAT CATCAGGGCC AGATTCTCCA GGCAACGACC 
0481 CAGACCAACG CAGCAGGACA A 
 Assemble Data
<PRE>

9343R-1.IR_full       1   GCC<span class="snp"><tt>N</tt></span>CG<span class="snp"><tt>C</tt></span>TATCGGCAATCCAATTGTTGCGCTGCCATGGCGACCTCGTCGATTGCACGTTG 60
                          |||<span class="snp"><tt>&nbsp;</tt></span>||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     1   GCC<span class="snp"><tt>T</tt></span>CG<span class="snp"><tt>-</tt></span>TATCGGCAATCCAATTGTTGCGCTGCCATGGCGACCTCGTCGATTGCACGTTG 60


9343R-1.IR_full       61  GCCGCCGGCGGGCGGAGTTTTCCCGCCCACAAGATAGTCCTGTGCGCCGCCTCCCCCTTT 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     61  GCCGCCGGCGGGCGGAGTTTTCCCGCCCACAAGATAGTCCTGTGCGCCGCCTCCCCCTTT 120


9343R-1.IR_full       121 CTGCTGGACTTGCTAAAGAATACACCATGCAAGCATCCAGTGGTTATGTTGGCTGGCGTC 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     121 CTGCTGGACTTGCTAAAGAATACACCATGCAAGCATCCAGTGGTTATGTTGGCTGGCGTC 180


9343R-1.IR_full       181 AATGCGAACGATCTGGAGGCGCTGCTGGAGTTTGTGTACCGCGGAGAGGTGAGCGTGGAT 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     181 AATGCGAACGATCTGGAGGCGCTGCTGGAGTTTGTGTACCGCGGAGAGGTGAGCGTGGAT 240


9343R-1.IR_full       241 CACGCCCAGCTGCCGTCGCTACTGCAGGCTGCCCAGTGCCTGAACATCCAGGGACTGGCA 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     241 CACGCCCAGCTGCCGTCGCTACTGCAGGCTGCCCAGTGCCTGAACATCCAGGGACTGGCA 300


9343R-1.IR_full       301 CCGCAGACGGTTACCAAGGACGACTACACCACGCACTCGATACAACTGCAGCACATGATT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     301 CCGCAGACGGTTACCAAGGACGACTACACCACGCACTCGATACAACTGCAGCACATGATT 360


9343R-1.IR_full       361 CCACAACATCACGACCAAGACCAACTGATTGCCACGATCG<span class="snp"><tt>N</tt></span>CACGGCTCCACAGCAAACG 420
                          ||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||
9343R-1.in silico     361 CCACAACATCACGACCAAGACCAACTGATTGCCACGATCG<span class="snp"><tt>C</tt></span>CACGGCTCCACAGCAAACG 420


9343R-1.IR_full       421 GTTCATGCCCAGGTGGTGGAGGACATCCATCATCAGGGCCAGATTCTCCAGGCAACGACC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9343R-1.in silico     421 GTTCATGCCCAGGTGGTGGAGGACATCCATCATCAGGGCCAGATTCTCCAGGCAACGACC 480


9343R-1.IR_full       481 CAGACCAACGCAGCAGGACAA 501
                          |||||||||||||||||||||
9343R-1.in silico     481 CAGACCAACGCAGCAGGACAA 501

</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  NM_206356.2  CG33261-RB, transcript variant B (Trl), mRNA 
100   482  NM_001038926.1  CG33261-RI, transcript variant I (Trl), mRNA 
100   482  NM_206357.2  CG33261-RD, transcript variant D (Trl), mRNA 
100   482  NM_206358.2  CG33261-RA, transcript variant A (Trl), mRNA 
100   482  NM_206360.1  CG33261-RF, transcript variant F (Trl), mRNA 
100   482  NM_206355.2  CG33261-RC, transcript variant C (Trl), mRNA 
100   482  NM_001038925.1  CG33261-RH, transcript variant H (Trl), mRNA 
100   482  NM_206359.2  CG33261-RE, transcript variant E (Trl), mRNA 
69.91   337  NM_001038924.1  CG33261-RG, transcript variant G (Trl), mRNA 
0.41   NM_140783.2  CG7285-RA (star1), mRNA 
0   NM_131987.2  CG4202-RA (Sas10), mRNA 
0   NM_001014589.1  CG33522-RA, transcript variant A (scaf6), mRNA 
0   NM_135371.3  CG7627-RA (CG7627), mRNA 
0   NM_141297.1  CG2926-RA (CG2926), mRNA 
0   NM_138130.2  CG30420-RB, transcript variant B (Atf-2), mRNA 
0   NM_166690.1  CG30420-RA, transcript variant A (Atf-2), mRNA 
0   NM_167852.1  CG9097-RB, transcript variant B (bab1), mRNA 
0   NM_206229.1  CG9097-RA, transcript variant A (bab1), mRNA 
0   NM_137701.2  CG4030-RA (CG4030), mRNA 
0   11  NM_169909.1  CG5460-RB, transcript variant B (H), mRNA 
0   11  NM_169908.1  CG5460-RD, transcript variant D (H), mRNA 
0   11  NM_169907.1  CG5460-RA, transcript variant A (H), mRNA 
0   11  NM_079694.2  CG5460-RC, transcript variant C (H), mRNA 
0   NM_168416.1  CG32066-RB, transcript variant B (CG32066), mRNA 
0   NM_168417.1  CG32066-RC, transcript variant C (CG32066), mRNA 
0   NM_135186.1  CG16947-RA (CG16947), mRNA 
0   NM_166959.1  CG32498-RO, transcript variant O (dnc), mRNA 
0   NM_166960.1  CG32498-RB, transcript variant B (dnc), mRNA 
0   NM_166961.1  CG32498-RI, transcript variant I (dnc), mRNA 
0   NM_166965.1  CG32498-RJ, transcript variant J (dnc), mRNA 
 Pathways (updated: 2024/04/26)
 KEGG Pathway

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