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NIG-RNAi Strains Detail
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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)
 Stock ID 7888R-3 
 Symbol CG7888  Full Name CG7888 
 CG No CG7888  Old CG No CG7888 
 Synonyms CG7888 
 Accession No (Link to NCBI) NM_168433.1 
 Inserted Chr. lll 
 Insertional Mutation   
 Phenotype induced by Act5C-GAL4 at 28 degrees viable 
 Map Viewer
 Reference
[Please submit your publication] 		Umetsu D, Dunst S, Dahmann C.
An RNA interference screen for genes required to shape the anteroposterior compartment boundary in Drosophila identifies the Eph receptor.
PLoS One (2014) 9(12) e114340 [ PubMed ID = 25473846 ] [ RRC reference ]  
 Comment  
 Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)
 Primer Seq. 5' 
aaggcctacatggccggaccgAAGGATCCCGACTACAATCCC 
 Primer Seq. 3' 
aatctagaggtaccCGCACCCAGTTGATGAGGATC 
 Predicted Fragment Size 
500 
 IR fragment full Seq 
0001 AAGGATCCCG ACTACAATCC CTATCATCAT CGCGATGTGG AGCATCCCAC CACGAACTCG 
0061 GAAACCCTGT TCCATTTGCT AAAGGGTTCG CTGGGCACAG TGAATTCTGG CCATGCCAAA 
0121 TGCCTTTCGC AACTCCGGTT ATATCACTGG ATCCATTGGT ACGATTGTCA TTGGTTTCAT 
0181 TTGCACCTTC TGCATTCACC AGCTGGTCAA GGCTCAGTAT GAACTGTGCC GCAGGAAGNA 
0241 AGATGCCCAG CATGAATTAT CCAATGGTAG CGGAAACGGC AATGGGCGAA GGCCCCANAA 
0301 TGTTTCCGGG TTTTTGCTCC CTACATTGGC ACAGTGGTTA ACACCTTCCT GCTAATCTAT 
0361 CAACTGGGCA CCTGTTGCGT TTACGTGGTC TTCGTGGCGT CCAACATTAA GGCCATTGTG 
0421 GATGCAGTGG CCGANTACGA GCATCGATGT GCGACTCTGC ATGATCATCA TACTGCTGCC 
0481 ACTGATCCTC ATCAACTGGG TGCG 
 in silico PCR Fragment 
0001 AAGGATCCCG ACTACAATCC CTATCATCAT CGCGATGTGG AGCATCCCAC CACGAACTCG 
0061 GAAACCCTGT TCCATTTGCT AAAGGGTTCG CTGGGCACAG -GAATTCTGG CCATGCCAAA 
0121 TGCCTTTCGC AACTCCGGTT ATATCACTGG ATCCATTGGT ACGATTGTCA TTGGTTTCAT 
0181 TTGCACCTTC TGCATTCACC AGCTGGTCAA GGCTCAGTAT GAACTGTGCC GCAGGAAG-A 
0241 AGATGCCCAG CATGAATTAT CCAATGGTAG CGGAAACGGC AATGGGCGAA GGCCCCA-AA 
0301 TGTTTCCGGG TTTTTGCTCC CTACATTGGC ACAGTGGTTA ACACCTTCCT GCTAATCTAT 
0361 CAACTGGGCA CCTGTTGCGT TTACGTGGTC TTCGTGGCGT CCAACATTAA GGCCATTGTG 
0421 GATGCAGTGG CCGA-TACGA GCATCGATGT GCGACTCTGC ATGATCATCA TACTGCTGCC 
0481 ACTGATCCTC ATCAACTGGG TGCG 
 Assemble Data 

7888R-3.IR_full       1   AAGGATCCCGACTACAATCCCTATCATCATCGCGATGTGGAGCATCCCACCACGAACTCG 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7888R-3.in silico     1   AAGGATCCCGACTACAATCCCTATCATCATCGCGATGTGGAGCATCCCACCACGAACTCG 60


7888R-3.IR_full       61  GAAACCCTGTTCCATTTGCTAAAGGGTTCGCTGGGCACAGTGAATTCTGGCCATGCCAAA 120
                          |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
7888R-3.in silico     61  GAAACCCTGTTCCATTTGCTAAAGGGTTCGCTGGGCACAG-GAATTCTGGCCATGCCAAA 120


7888R-3.IR_full       121 TGCCTTTCGCAACTCCGGTTATATCACTGGATCCATTGGTACGATTGTCATTGGTTTCAT 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7888R-3.in silico     121 TGCCTTTCGCAACTCCGGTTATATCACTGGATCCATTGGTACGATTGTCATTGGTTTCAT 180


7888R-3.IR_full       181 TTGCACCTTCTGCATTCACCAGCTGGTCAAGGCTCAGTATGAACTGTGCCGCAGGAAGNA 240
                          |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
7888R-3.in silico     181 TTGCACCTTCTGCATTCACCAGCTGGTCAAGGCTCAGTATGAACTGTGCCGCAGGAAG-A 240


7888R-3.IR_full       241 AGATGCCCAGCATGAATTATCCAATGGTAGCGGAAACGGCAATGGGCGAAGGCCCCANAA 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
7888R-3.in silico     241 AGATGCCCAGCATGAATTATCCAATGGTAGCGGAAACGGCAATGGGCGAAGGCCCCA-AA 300


7888R-3.IR_full       301 TGTTTCCGGGTTTTTGCTCCCTACATTGGCACAGTGGTTAACACCTTCCTGCTAATCTAT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7888R-3.in silico     301 TGTTTCCGGGTTTTTGCTCCCTACATTGGCACAGTGGTTAACACCTTCCTGCTAATCTAT 360


7888R-3.IR_full       361 CAACTGGGCACCTGTTGCGTTTACGTGGTCTTCGTGGCGTCCAACATTAAGGCCATTGTG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7888R-3.in silico     361 CAACTGGGCACCTGTTGCGTTTACGTGGTCTTCGTGGCGTCCAACATTAAGGCCATTGTG 420


7888R-3.IR_full       421 GATGCAGTGGCCGANTACGAGCATCGATGTGCGACTCTGCATGATCATCATACTGCTGCC 480
                          |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
7888R-3.in silico     421 GATGCAGTGGCCGA-TACGAGCATCGATGTGCGACTCTGCATGATCATCATACTGCTGCC 480


7888R-3.IR_full       481 ACTGATCCTCATCAACTGGGTGCG 504
                          ||||||||||||||||||||||||
7888R-3.in silico     481 ACTGATCCTCATCAACTGGGTGCG 504



 
 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  2  NM_168434.1  CG7888-RC, transcript variant C (CG7888), mRNA 
100   482  0  0  2  NM_168433.1  CG7888-RA, transcript variant A (CG7888), mRNA 
100   482  0  0  2  NM_140168.1  CG7888-RB, transcript variant B (CG7888), mRNA 
0   0  3  3  4  NM_164517.1  CG8817-RC, transcript variant C (lilli), mRNA 
0   0  3  3  4  NM_164516.1  CG8817-RA, transcript variant A (lilli), mRNA 
0   0  3  3  4  NM_078740.2  CG8817-RB, transcript variant B (lilli), mRNA 
0   0  3  3  2  NM_078681.2  CG32540-RA (CCKLR-17D3), mRNA 
0   0  3  2  4  NM_057587.3  CG9654-RA (Rbp4), mRNA 
0   0  2  5  3  NM_139854.1  CG8583-RA (sec63), mRNA 
0   0  1  5  7  NM_001043114.1  CG33484-RD, transcript variant D (zormin), mRNA 
0   0  1  5  7  NM_001043112.1  CG33484-RB, transcript variant B (zormin), mRNA 
0   0  1  5  7  NM_206240.1  CG33484-RA, transcript variant A (zormin), mRNA 
0   0  1  5  7  NM_001043113.1  CG33484-RC, transcript variant C (zormin), mRNA 
0   0  1  5  6  NM_079768.2  CG6238-RA, transcript variant A (ssh), mRNA 
0   0  1  5  5  NM_170184.1  CG6238-RB, transcript variant B (ssh), mRNA 
0   0  1  5  2  NM_165491.1  CG3287-RB, transcript variant B (CG3287), mRNA 
0   0  1  5  2  NM_165492.1  CG3287-RC, transcript variant C (CG3287), mRNA 
0   0  1  4  5  NM_206679.1  CG1725-RJ, transcript variant J (dlg1), mRNA 
0   0  1  4  5  NM_206680.1  CG1725-RI, transcript variant I (dlg1), mRNA 
0   0  1  4  5  NM_167280.1  CG1725-RC, transcript variant C (dlg1), mRNA 
0   0  1  2  4  NM_206123.1  CG33464-RA (CG33464), mRNA 
0   0  1  2  3  NM_057224.3  CG4694-RA (her), mRNA 
0   0  1  2  2  NM_140397.1  CG10089-RD, transcript variant D (CG10089), mRNA 
0   0  1  2  2  NM_137570.1  CG10051-RA (CG10051), mRNA 
0   0  1  2  2  NM_168548.1  CG10089-RA, transcript variant A (CG10089), mRNA 
0   0  1  2  2  NM_168549.1  CG10089-RB, transcript variant B (CG10089), mRNA 
0   0  0  11  11  NM_139429.1  CG1139-RA (CG1139), mRNA 
0   0  0  8  5  NM_165932.1  CG8785-RB, transcript variant B (CG8785), mRNA 
0   0  0  8  5  NM_136960.2  CG8785-RA, transcript variant A (CG8785), mRNA 
0   0  0  7  16  NM_168432.1  CG6327-RC, transcript variant C (CG6327), mRNA 

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