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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 9949R-2 
 Symbol sina  Full Name seven in absentia 
 CG No CG9949  Old CG No CG9949 
 Synonyms Sina, sia, CG9949, unnamed, anon-EST:fe2H7, sina 
 Accession No (Link to NCBI) NM_057377.3 
 Inserted Chr. lll 
 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 ]

Du J, Zhang J, Su Y, Liu M, Ospina JK, Yang S, Zhu AJ.
In vivo RNAi screen reveals neddylation genes as novel regulators of Hedgehog signaling.
PLoS One (2011) 6(9) e24168 [ PubMed ID = 21931660 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgAAGGTTGCCTCGAACGTCAAG 
 Primer Seq. 3' 
aatctagaggtaccTCCGAGTTGTGAATTGCGGAA 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 AAGGTTGCCT CGAACGTCAA GTTNCCCGTG CAAGCACTCC GGCTACGGAT GCACCGCCTC 
0061 GCTGGTTTAC ACGGAAAAGA CAGAACACGA GGAGACGTGC GAGTGCCGGC CCTACCTGTG 
0121 TCCGTGCCCG GGCGCCAGCT GTAAGTGGCA GGGCCCGCTT GACCTAGTCA TGCAGCATCT 
0181 GATGATGTCG CACAAGAGCA TCACAACGCT GCAGGGCGAG GACATCGTGT TCCTGGCCAC 
0241 CGACATCAAN CCTGCCCGGC GCCGTCGATT GGGTAATGAT GCAGTCCTGC TTCGGCCACC 
0301 ATTTTATGCT CGTGCTGGAG AAGCAGGAGA AGTACGACGG ACACCAGCAG TTCTTTGCCA 
0361 TCGTTCAGCT GATCGGGTCG CGCAAGGAAG CGGAGAACTT TGTCTATCGC CTGGAGTTGA 
0421 ACGGAAACCG ACGCCGGCTC ACCTGGGAGG CAATGCCGCG TTCGATCCAC GAGGGCGTCG 
0481 CTTCCGCAAT TCACAACTCG GA 
 in silico PCR Fragment 
0001 AAGGTTGCCT CGAACGTCAA GTT-CCCGTG CAAGCACTCC GGCTACGGAT GCACCGCCTC 
0061 GCTGGTTTAC ACGGAAAAGA CAGAACACGA GGAGACGTGC GAGTGCCGGC CCTACCTGTG 
0121 TCCGTGCCCG GGCGCCAGCT GTAAGTGGCA GGGCCCGCTT GACCTAGTCA TGCAGCATCT 
0181 GATGATGTCG CACAAGAGCA TCACAACGCT GCAGGGCGAG GACATCGTGT TCCTGGCCAC 
0241 CGACATCAA- CCTGCCCGGC GCCGTCGATT GGGTAATGAT GCAGTCCTGC TTCGGCCACC 
0301 ATTTTATGCT CGTGCTGGAG AAGCAGGAGA AGTACGACGG ACACCAGCAG TTCTTTGCCA 
0361 TCGTTCAGCT GATCGGGTCG CGCAAGGAAG CGGAGAACTT TGTCTATCGC CTGGAGTTGA 
0421 ACGGAAACCG ACGCCGGCTC ACCTGGGAGG CAATGCCGCG TTCGATCCAC GAGGGCGTCG 
0481 CTTCCGCAAT TCACAACTCG GA 
 Assemble Data 

9949R-2.IR_full       1   AAGGTTGCCTCGAACGTCAAGTTNCCCGTGCAAGCACTCCGGCTACGGATGCACCGCCTC 60
                          ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
9949R-2.in silico     1   AAGGTTGCCTCGAACGTCAAGTT-CCCGTGCAAGCACTCCGGCTACGGATGCACCGCCTC 60


9949R-2.IR_full       61  GCTGGTTTACACGGAAAAGACAGAACACGAGGAGACGTGCGAGTGCCGGCCCTACCTGTG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     61  GCTGGTTTACACGGAAAAGACAGAACACGAGGAGACGTGCGAGTGCCGGCCCTACCTGTG 120


9949R-2.IR_full       121 TCCGTGCCCGGGCGCCAGCTGTAAGTGGCAGGGCCCGCTTGACCTAGTCATGCAGCATCT 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     121 TCCGTGCCCGGGCGCCAGCTGTAAGTGGCAGGGCCCGCTTGACCTAGTCATGCAGCATCT 180


9949R-2.IR_full       181 GATGATGTCGCACAAGAGCATCACAACGCTGCAGGGCGAGGACATCGTGTTCCTGGCCAC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     181 GATGATGTCGCACAAGAGCATCACAACGCTGCAGGGCGAGGACATCGTGTTCCTGGCCAC 240


9949R-2.IR_full       241 CGACATCAANCCTGCCCGGCGCCGTCGATTGGGTAATGATGCAGTCCTGCTTCGGCCACC 300
                          ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     241 CGACATCAA-CCTGCCCGGCGCCGTCGATTGGGTAATGATGCAGTCCTGCTTCGGCCACC 300


9949R-2.IR_full       301 ATTTTATGCTCGTGCTGGAGAAGCAGGAGAAGTACGACGGACACCAGCAGTTCTTTGCCA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     301 ATTTTATGCTCGTGCTGGAGAAGCAGGAGAAGTACGACGGACACCAGCAGTTCTTTGCCA 360


9949R-2.IR_full       361 TCGTTCAGCTGATCGGGTCGCGCAAGGAAGCGGAGAACTTTGTCTATCGCCTGGAGTTGA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     361 TCGTTCAGCTGATCGGGTCGCGCAAGGAAGCGGAGAACTTTGTCTATCGCCTGGAGTTGA 420


9949R-2.IR_full       421 ACGGAAACCGACGCCGGCTCACCTGGGAGGCAATGCCGCGTTCGATCCACGAGGGCGTCG 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9949R-2.in silico     421 ACGGAAACCGACGCCGGCTCACCTGGGAGGCAATGCCGCGTTCGATCCACGAGGGCGTCG 480


9949R-2.IR_full       481 CTTCCGCAATTCACAACTCGGA 502
                          ||||||||||||||||||||||
9949R-2.in silico     481 CTTCCGCAATTCACAACTCGGA 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  0  0  0  NM_057377.3  CG9949-RA, transcript variant A (sina), mRNA 
100   482  0  0  0  NM_168689.1  CG9949-RB, transcript variant B (sina), mRNA 
0   0  3  2  5  NM_130630.1  CG14053-RA (CG14053), mRNA 
0   0  2  3  5  NM_166669.1  CG4527-RB, transcript variant B (slik), mRNA 
0   0  2  3  5  NM_206214.1  CG4527-RC, transcript variant C (slik), mRNA 
0   0  2  3  5  NM_206213.1  CG4527-RD, transcript variant D (slik), mRNA 
0   0  2  3  5  NM_001014549.1  CG4527-RE, transcript variant E (slik), mRNA 
0   0  2  3  5  NM_138064.2  CG4527-RA, transcript variant A (slik), mRNA 
0   0  2  3  5  NM_142665.1  CG15697-RA, transcript variant A (RpS30), mRNA 
0   0  2  3  5  NM_169933.1  CG15697-RB, transcript variant B (RpS30), mRNA 
0   0  2  2  2  NM_164561.2  CG3920-RB, transcript variant B (l(2)k16918), mRNA 
0   0  2  2  2  NM_143795.3  CG3920-RA, transcript variant A (l(2)k16918), mRNA 
0   0  1  5  8  NM_169532.1  CG9412-RE, transcript variant E (rin), mRNA 
0   0  1  5  8  NM_169533.1  CG9412-RA, transcript variant A (rin), mRNA 
0   0  1  5  8  NM_080168.2  CG9412-RB, transcript variant B (rin), mRNA 
0   0  1  5  8  NM_169531.1  CG9412-RD, transcript variant D (rin), mRNA 
0   0  1  5  8  NM_169530.1  CG9412-RC, transcript variant C (rin), mRNA 
0   0  1  5  7  NM_079001.2  CG3886-RA (Psc), mRNA 
0   0  1  5  5  NM_079858.3  CG12070-RA, transcript variant A (Sap-r), mRNA 
0   0  1  5  5  NM_170529.2  CG12070-RB, transcript variant B (Sap-r), mRNA 
0   0  1  5  3  NM_169588.1  CG31317-RA, transcript variant A (stumps), mRNA 
0   0  1  5  2  NM_139938.2  CG7213-RA (CG7213), mRNA 
0   0  1  4  3  NM_080709.3  CG8285-RA (boss), mRNA 
0   0  1  3  7  NM_057944.3  CG12249-RB, transcript variant B (mira), mRNA 
0   0  1  3  4  NM_057943.3  CG12249-RA, transcript variant A (mira), mRNA 
0   0  1  2  9  NM_078717.2  CG3696-RA, transcript variant A (kis), mRNA 
0   0  1  2  6  NM_080036.1  CG17100-RA (CG17100), mRNA 
0   0  1  2  5  NM_057514.3  CG8153-RB, transcript variant B (mus210), mRNA 
0   0  1  2  5  NM_057513.3  CG8153-RA, transcript variant A (mus210), mRNA 
0   0  1  2  5  NM_166087.1  CG8153-RC, transcript variant C (mus210), mRNA 

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