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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 5629R-1 
 Symbol CG5629  Full Name CG5629 
 CG No CG5629  Old CG No CG5629 
 Synonyms GH03502, BcDNA:GH03502, anon-WO0118547.401, CG5629, dPPCS 
 Accession No (Link to NCBI) NM_169848.1 
 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' 
aaggcctacatggccggaccgATGACGCACTGGGAGGACTTC 
 Primer Seq. 3' 
aatctagaggtaccTAGGTAGAGCACGGCTCGCTC 
 Predicted Fragment Size 
528 
 IR fragment full Seq 
0001 ATGACGCACT GGGAGGACTT CTACAACACG CACCTGCCGC CCGCGGACTT CGAGGACAAT 
0061 CGCTCCCTGC TCAAGGAGTT CTGCGAACGG CACAACAAGC TCCAGAATCG CATCGTCCTC 
0121 GTCACGTCCG GTGGCACCAC AGTTCCCCTG GAGCATAATA CGGTGCGGTT TGTGGACAAT 
0181 TTTAGTGCTG GAACGCGTGG CTCCGCCTCG GCGGAATACT TCCTCGACCA CGACTATGCC 
0241 GTGATTTTCA TGCATCGCCA CAAGTCGCTG GAGCCCTTCA CGCGCCACTT CACCGGCCAG 
0301 CAGTTCTTCG ACATGCTGGA CATTGCGGAC AACAGCCAGA GTTCGACGAT AGCCATCAAA 
0361 CCGGATTCGG TGGACGTGTT TGCTCCGGTG CTGGCCAAAT ACAAGATAGC CCGCGAAACG 
0421 CAGATGATCC TGTACGTGAA CTTCACCAGC GTGGTGGACT ACATGTGGCT GCTCCGCGCC 
0481 GCCTGCGAGT GCCTGGCCGC CTTTGAGGAG CGAGCCGTGC TATACCTA 
 in silico PCR Fragment 
0001 ATGACGCACT GGGAGGACTT CTACAACACG CACCTGCCGC CCGCGGACTT CGAGGACAAT 
0061 CGCTCCCTGC TCAAGGAGTT CTGCGAACGG CACAACAAGC TCCAGAATCG CATCGTCCTC 
0121 GTCACGTCCG GTGGCACCAC AGTTCCCCTG GAGCACAATA CGGTGCGGTT TGTGGACAAT 
0181 TTTAGTGCTG GAACGCGTGG CTCCGCCTCG GCGGAATACT TCCTCGACCA CGACTATGCC 
0241 GTGATTTTCA TGCATCGCCA CAAGTCGCTG GAGCCCTTCA CGCGCCACTT CACCGGCCAG 
0301 CAGTTCTTCG ACATGCTGGA CATTGCGGAC AACAGCCAGA GTTCGACGAT AGCCATCAAA 
0361 CCGGATTCGG TGGACGTGTT TGCTCCGGTG CTGGCCAAAT ACAAGATAGC CCGCGAAACG 
0421 CAGATGATCC TGTACGTGAA CTTCACCAGC GTGGTGGACT ACATGTGGCT GCTCCGCGCC 
0481 GCCTGCGAGT GCCTGGCCGC CTTCGAGGAG CGAGCCGTGC TCTACCTA 
 Assemble Data 

5629R-1.IR_full       1   ATGACGCACTGGGAGGACTTCTACAACACGCACCTGCCGCCCGCGGACTTCGAGGACAAT 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     1   ATGACGCACTGGGAGGACTTCTACAACACGCACCTGCCGCCCGCGGACTTCGAGGACAAT 60


5629R-1.IR_full       61  CGCTCCCTGCTCAAGGAGTTCTGCGAACGGCACAACAAGCTCCAGAATCGCATCGTCCTC 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     61  CGCTCCCTGCTCAAGGAGTTCTGCGAACGGCACAACAAGCTCCAGAATCGCATCGTCCTC 120


5629R-1.IR_full       121 GTCACGTCCGGTGGCACCACAGTTCCCCTGGAGCATAATACGGTGCGGTTTGTGGACAAT 180
                          ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
5629R-1.in silico     121 GTCACGTCCGGTGGCACCACAGTTCCCCTGGAGCACAATACGGTGCGGTTTGTGGACAAT 180


5629R-1.IR_full       181 TTTAGTGCTGGAACGCGTGGCTCCGCCTCGGCGGAATACTTCCTCGACCACGACTATGCC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     181 TTTAGTGCTGGAACGCGTGGCTCCGCCTCGGCGGAATACTTCCTCGACCACGACTATGCC 240


5629R-1.IR_full       241 GTGATTTTCATGCATCGCCACAAGTCGCTGGAGCCCTTCACGCGCCACTTCACCGGCCAG 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     241 GTGATTTTCATGCATCGCCACAAGTCGCTGGAGCCCTTCACGCGCCACTTCACCGGCCAG 300


5629R-1.IR_full       301 CAGTTCTTCGACATGCTGGACATTGCGGACAACAGCCAGAGTTCGACGATAGCCATCAAA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     301 CAGTTCTTCGACATGCTGGACATTGCGGACAACAGCCAGAGTTCGACGATAGCCATCAAA 360


5629R-1.IR_full       361 CCGGATTCGGTGGACGTGTTTGCTCCGGTGCTGGCCAAATACAAGATAGCCCGCGAAACG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     361 CCGGATTCGGTGGACGTGTTTGCTCCGGTGCTGGCCAAATACAAGATAGCCCGCGAAACG 420


5629R-1.IR_full       421 CAGATGATCCTGTACGTGAACTTCACCAGCGTGGTGGACTACATGTGGCTGCTCCGCGCC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5629R-1.in silico     421 CAGATGATCCTGTACGTGAACTTCACCAGCGTGGTGGACTACATGTGGCTGCTCCGCGCC 480


5629R-1.IR_full       481 GCCTGCGAGTGCCTGGCCGCCTTTGAGGAGCGAGCCGTGCTATACCTA 528
                          ||||||||||||||||||||||| ||||||||||||||||| ||||||
5629R-1.in silico     481 GCCTGCGAGTGCCTGGCCGCCTTCGAGGAGCGAGCCGTGCTCTACCTA 528



 
 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   510  0  0  2  NM_142527.2  CG5629-RB, transcript variant B (CG5629), mRNA 
100   510  0  0  0  NM_169848.1  CG5629-RA, transcript variant A (CG5629), mRNA 
0   0  5  4  9  NM_166337.1  CG11949-RB, transcript variant B (cora), mRNA 
0   0  5  4  7  NM_079067.2  CG11949-RA, transcript variant A (cora), mRNA 
0   0  4  3  5  NM_079076.3  CG10067-RA, transcript variant A (Act57B), mRNA 
0   0  4  3  5  NM_166414.1  CG10067-RB, transcript variant B (Act57B), mRNA 
0   0  3  4  3  NM_205940.1  CG10595-RB, transcript variant B (d), mRNA 
0   0  3  4  3  NM_175991.1  CG10595-RA, transcript variant A (d), mRNA 
0   0  3  2  7  NM_140007.1  CG5747-RA (mfr), mRNA 
0   0  2  4  2  NM_143689.1  CG11093-RA (CG11093), mRNA 
0   0  2  3  6  NM_141479.2  CG10086-RA (CG10086), mRNA 
0   0  2  3  4  NM_164387.1  CG3022-RB, transcript variant B (GABA-B-R3), mRNA 
0   0  2  3  4  NM_078723.2  CG3022-RA, transcript variant A (GABA-B-R3), mRNA 
0   0  2  3  2  NM_132738.1  CG9413-RA, transcript variant A (CG9413), mRNA 
0   0  2  3  2  NM_167411.1  CG9413-RB, transcript variant B (CG9413), mRNA 
0   0  2  2  7  NM_170246.1  CG17367-RA, transcript variant A (Lnk), mRNA 
0   0  2  2  7  NM_143181.2  CG17367-RB, transcript variant B (Lnk), mRNA 
0   0  2  2  7  NM_170247.1  CG17367-RC, transcript variant C (Lnk), mRNA 
0   0  1  5  4  NM_135602.2  CG6743-RA (Nup170), mRNA 
0   0  1  4  4  NM_079696.4  CG10498-RB, transcript variant B (cdc2c), mRNA 
0   0  1  4  4  NM_169916.1  CG10498-RA, transcript variant A (cdc2c), mRNA 
0   0  1  4  2  NM_176545.1  CG4620-RA, transcript variant A (unk), mRNA 
0   0  1  4  2  NM_176546.1  CG4620-RB, transcript variant B (unk), mRNA 
0   0  1  3  3  NM_136701.1  CG12129-RA (CG12129), mRNA 
0   0  1  3  2  NM_079000.2  CG3879-RA (Mdr49), mRNA 
0   0  1  2  12  NM_166546.2  CG30092-RD, transcript variant D (jbug), mRNA 
0   0  1  2  2  NM_138175.2  CG7020-RA (DIP2), mRNA 
0   0  1  2  2  NM_137828.1  CG10972-RA (ppk12), mRNA 
0   0  0  6  7  NM_057489.3  CG4722-RA (bib), mRNA 
0   0  0  5  7  NM_206504.1  CG31190-RB, transcript variant B (CG31190), mRNA 

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