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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 10719R-2 
 Symbol brat  Full Name brain tumor 
 CG No CG10719  Old CG No CG10719 
 Synonyms l(2)37Cf, Cf, l(2)E60, l(2)brat, fs(2)ltoPM43, anon-37CDa, E60, CG10719, brat, Brat 
 Accession No (Link to NCBI) NM_057597.2 
 Inserted Chr. ll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees lethal 
 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 ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgTCCTCACCGACACCATCTCTG 
 Primer Seq. 3' 
aatctagaggtaccTTGCTCGAGGAGCTGTTGCTG 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 TCCTCACCGA CACCATCTCT GGACTCGATG CGGGGCGGGG CGAACTCCAT TGAATCGTAC 
0061 GAACACGCCG GCTATCTATC AGACTCTCCG CTCACGTTGA GCGGTTCATC GCCACCGGCA 
0121 AGCGATTCGG CAATCTGCAG TGATGAGTAC ACGGGCGGCA NGCAGCGTTA AATCACGCTC 
0181 TGAAGTGACT GTAATCAATG GCCATCATCC CATTTCGGCC TCCGTATCGT CCAGCTCTTC 
0241 GGCCAGCTCT TCATCCTGCT CGTCGTCATC GTCCTCATCC TCGTCTTCGT CATCGTCCAG 
0301 CTCCTCGACC AGCGGCCTCA GCGGNTTGCG GCAGTACCAG CAGCAGTGTG ATCAGCGCCA 
0361 ACAACGTTGC GAGCAGCAAT GGACCAGGCG TTATCGGCAG CAATCTTCAG TCCTCAAACA 
0421 ATGGGGGCAA CTCGGGCATC AGCAGTCTGG TCGTGGGTGC GGGCAAGGGA AGCAACAGCA 
0481 GCAGCAACAG CTCCTCGAGC AA 
 in silico PCR Fragment 
0001 TCCTCACCGA CACCATCTCT GGACTCGATG CGGGGCGGGG CGAACTCGAT TGAATCGTAC 
0061 GAACACGCCG GCTATCTATC AGACTCTCCG CTCACGTTGA GCGGTTCATC GCCACCGGCA 
0121 AGCGATTCGG CAATCTGCAG TGATGAGTAC ACGGGCGGCA -GCAGCGTTA AATCACGCTC 
0181 TGAGGTGACT GTAATCAATG GCCATCATCC CATTTCGGCC TCCGTATCGT CCAGCTCTTC 
0241 GGCCAGCTCT TCATCCTGCT CGTCGTCATC GTCCTCATCC TCGTCTTCGT CATCGTCCAG 
0301 CTCCTCGACC AGCGGCCTCA GCGG-TTGCG GCAGTACCAG CAGCAGTGTG ATCAGCGCCA 
0361 ACAACGTTGC GAGCAGCAAT GGACCAGGCG TTATCGGCAG CAATCTTCAG TCCTCAAACA 
0421 ATGGCGGCAA CTCGGGCATC AGCAGTCTGG TCGTGGGTGC GGGCAAGGGA AGCAACAGCA 
0481 GCAGCAACAG CTCCTCGAGC AA 
 Assemble Data 

10719R-2.IR_full       1   TCCTCACCGACACCATCTCTGGACTCGATGCGGGGCGGGGCGAACTCCATTGAATCGTAC 60
                           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
10719R-2.in silico     1   TCCTCACCGACACCATCTCTGGACTCGATGCGGGGCGGGGCGAACTCGATTGAATCGTAC 60


10719R-2.IR_full       61  GAACACGCCGGCTATCTATCAGACTCTCCGCTCACGTTGAGCGGTTCATCGCCACCGGCA 120
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
10719R-2.in silico     61  GAACACGCCGGCTATCTATCAGACTCTCCGCTCACGTTGAGCGGTTCATCGCCACCGGCA 120


10719R-2.IR_full       121 AGCGATTCGGCAATCTGCAGTGATGAGTACACGGGCGGCANGCAGCGTTAAATCACGCTC 180
                           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
10719R-2.in silico     121 AGCGATTCGGCAATCTGCAGTGATGAGTACACGGGCGGCA-GCAGCGTTAAATCACGCTC 180


10719R-2.IR_full       181 TGAAGTGACTGTAATCAATGGCCATCATCCCATTTCGGCCTCCGTATCGTCCAGCTCTTC 240
                           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
10719R-2.in silico     181 TGAGGTGACTGTAATCAATGGCCATCATCCCATTTCGGCCTCCGTATCGTCCAGCTCTTC 240


10719R-2.IR_full       241 GGCCAGCTCTTCATCCTGCTCGTCGTCATCGTCCTCATCCTCGTCTTCGTCATCGTCCAG 300
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
10719R-2.in silico     241 GGCCAGCTCTTCATCCTGCTCGTCGTCATCGTCCTCATCCTCGTCTTCGTCATCGTCCAG 300


10719R-2.IR_full       301 CTCCTCGACCAGCGGCCTCAGCGGNTTGCGGCAGTACCAGCAGCAGTGTGATCAGCGCCA 360
                           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
10719R-2.in silico     301 CTCCTCGACCAGCGGCCTCAGCGG-TTGCGGCAGTACCAGCAGCAGTGTGATCAGCGCCA 360


10719R-2.IR_full       361 ACAACGTTGCGAGCAGCAATGGACCAGGCGTTATCGGCAGCAATCTTCAGTCCTCAAACA 420
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
10719R-2.in silico     361 ACAACGTTGCGAGCAGCAATGGACCAGGCGTTATCGGCAGCAATCTTCAGTCCTCAAACA 420


10719R-2.IR_full       421 ATGGGGGCAACTCGGGCATCAGCAGTCTGGTCGTGGGTGCGGGCAAGGGAAGCAACAGCA 480
                           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
10719R-2.in silico     421 ATGGCGGCAACTCGGGCATCAGCAGTCTGGTCGTGGGTGCGGGCAAGGGAAGCAACAGCA 480


10719R-2.IR_full       481 GCAGCAACAGCTCCTCGAGCAA 502
                           ||||||||||||||||||||||
10719R-2.in silico     481 GCAGCAACAGCTCCTCGAGCAA 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
100.2   483  6  22  63  NM_057597.2  CG10719-RA, transcript variant A (brat), mRNA 
100.2   483  6  22  63  NM_134302.1  CG10719-RB, transcript variant B (brat), mRNA 
100.2   483  6  22  63  NM_206004.1  CG10719-RC, transcript variant C (brat), mRNA 
2.48   12  19  55  112  NM_135785.1  CG6043-RD, transcript variant D (CG6043), mRNA 
2.48   12  19  55  111  NM_165035.1  CG6043-RB, transcript variant B (CG6043), mRNA 
2.48   12  19  55  111  NM_165037.1  CG6043-RC, transcript variant C (CG6043), mRNA 
2.48   12  19  55  111  NM_165034.1  CG6043-RA, transcript variant A (CG6043), mRNA 
1.24   6  64  333  754  NM_080536.2  CG4013-RA, transcript variant A (Smr), mRNA 
1.24   6  64  333  754  NM_167334.1  CG4013-RB, transcript variant B (Smr), mRNA 
1.24   6  64  333  754  NM_167335.1  CG4013-RC, transcript variant C (Smr), mRNA 
1.24   6  29  89  228  NM_079903.2  CG15319-RB (nej), mRNA 
1.03   5  20  48  154  NM_167231.3  CG17255-RB, transcript variant B (CG17255), mRNA 
1.03   5  20  48  154  NM_132403.3  CG17255-RA, transcript variant A (CG17255), mRNA 
1.03   5  20  42  100  NM_080487.2  CG10572-RA (Cdk8), mRNA 
1.03   5  19  81  215  NM_078797.2  CG13109-RA (tai), mRNA 
1.03   5  10  25  75  NM_079119.2  CG4354-RA (slbo), mRNA 
1.03   5  8  41  81  NM_169733.2  CG10325-RB, transcript variant B (abd-A), mRNA 
1.03   5  8  41  80  NM_057345.2  CG10325-RA, transcript variant A (abd-A), mRNA 
1.03   5  5  10  71  NM_206270.1  CG10847-RA, transcript variant A (enc), mRNA 
1.03   5  5  10  71  NM_080026.2  CG10847-RB, transcript variant B (enc), mRNA 
0.82   4  31  136  328  NM_166030.1  CG8118-RB, transcript variant B (mam), mRNA 
0.82   4  31  136  328  NM_080376.1  CG8118-RA, transcript variant A (mam), mRNA 
0.82   4  22  81  221  NM_079671.2  CG7847-RA, transcript variant A (sr), mRNA 
0.82   4  18  60  157  NM_134474.4  CG32532-RA (CG32532), mRNA 
0.82   4  17  47  146  NM_166874.1  CG3638-RA, transcript variant A (CG3638), mRNA 
0.82   4  17  47  146  NM_130541.3  CG3638-RC, transcript variant C (CG3638), mRNA 
0.82   4  17  47  146  NM_166873.1  CG3638-RB, transcript variant B (CG3638), mRNA 
0.82   4  17  47  145  NM_166872.1  CG3638-RD, transcript variant D (CG3638), mRNA 
0.82   4  17  36  114  NM_132578.1  CG11146-RA (CG11146), mRNA 
0.82   4  16  41  115  NM_206620.4  CG32782-RD, transcript variant D (tlk), mRNA 

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