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NIG-RNAi Strains Detail

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Stock Detail (Last Update: November 2007_FlyBase version FB2007_11)

Stock ID

9279R-1

Symbol

CG9279

Full Name

CG9279

CG No

CG9279

Old CG No

CG9279

Synonyms

CG9279

Accession No (Link to NCBI)

NM_140867.1

Inserted Chr.

Insertional Mutation

lethal

Phenotype induced by Act5C-GAL4 at 28 degrees

viable

Map Viewer

Reference
[Please submit your publication]

Comment

Sequence (Last Update: July 10, 2007_NCBI RefSeq Release 24)

Primer Seq. 5'

aaggcctacatggccggaccgGTACACGGCAGCATTTACTTC

Primer Seq. 3'

aatctagaggtaccGCTGGCTGGTTAGTCTCGTTT

Predicted Fragment Size

IR fragment full Seq

0001 NTACACGGCA GCATTTACTT CAAGNGTCCC ACTAACTGTG GCCTCTTTGT GCGCGCCCAG 
0061 cAGCTGGTGA GGATTGCCGA GTTGCCGAAg GNGGGGGACA ATCGAAAAGC CGATGAAATG 
0121 CAGCNCNACG GGGCCAGAGC GaANCTTTCA AGGCGGAGTG GCAGTGGGAA GTCTGTGGAG 
0181 GAGCAGGATA ACCAGAGGGA GCAGCAGGCA AGCACATCTG GGAAAGTAAA GGNCACTTCG 
0241 TNGACTCCAT CACCGCAGCA TAAGAACAGA AACACTCATT CCTCCATGGA AACGTCTTTG 
0301 GCTAAAACTT CTGGAAAATT TTTGGCGANT CATCAGCAAC CATTACGTAG CTTCCAATTT 
0361 TGTAGAATCC AGTGACTTGT GAAAGCAGTG TAAGGAATTC GCAGTCTAAA GAAACTGGAG 
0421 AAGTAACCTT GTCTCCCAAG AAGTCATCAG ATATTGAGCA ATCAAAGAAG CATTCACAGC 
0481 AGGAAACAAA CGAGACTAAC CANGCCAGc

in silico PCR Fragment

0001 GTACACGGCA GCATTTACTT CAAGTGTCCC ACTAACTGTG GCCTCTTTGT GCGCGCCCAG 
0061 CAGCTGGTGA GGATTGCCGA GTTGCCGAAG GGGGGGGACA ATCGAAAAGC CGATGAAATG 
0121 CAGCGCGACG GGGCCAGAGC GAAGCTTTCA AGGCGGAGTG GCAGTGGGAA GTCTGTGGAG 
0181 GAGCAGGATA ACCAGAGGGA GCAGCAGGCA AGCACATCTG GGAAAGTAAA GGCCACTTCG 
0241 TCGACTCCAT CACCGCAGCA TAAGAACAGA AACACTCATT CCTCCATGGA AACGTCTTTG 
0301 GCTAAAACTT CTGGAAAATT TTTGGCGACT CATCAGCAAC CATTAC--AG CTTCCAA--- 
0361 ---AGAATCC AGTGACTTGT GAAAGCAGTG TAAGGAATTC GCAGTCTAAA GAAACTGGAG 
0421 AAGTAACCTT GTCTCCCAAG AAGTCATCAG ATATTGAGCA ATCAAAGAAG CATTCACAGC 
0481 AGGAAACAAA CGAGACTAAC CA-GCCAGC

Assemble Data

<PRE>

9279R-1.IR_full        1   TACACGGCAGCATTTACTTCAAG<span class="snp"><tt>N</tt></span>GTCCCACTAACTGTGGCCTCTTTGTGCGCGCCCAG 59
                           |||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||
9279R-1.in silico      1   TACACGGCAGCATTTACTTCAAG<span class="snp"><tt>T</tt></span>GTCCCACTAACTGTGGCCTCTTTGTGCGCGCCCAG 59


9279R-1.IR_full       61  CAGCTGGTGAGGATTGCCGAGTTGCCGAAGG<span class="snp"><tt>N</tt></span>GGGGGACAATCGAAAAGCCGATGAAATG 119
                          |||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||
9279R-1.in silico     61  CAGCTGGTGAGGATTGCCGAGTTGCCGAAGG<span class="snp"><tt>G</tt></span>GGGGGACAATCGAAAAGCCGATGAAATG 119


9279R-1.IR_full       121 CAGC<span class="snp"><tt>N</tt></span>C<span class="snp"><tt>N</tt></span>ACGGGGCCAGAGCGAA<span class="snp"><tt>N</tt></span>CTTTCAAGGCGGAGTGGCAGTGGGAAGTCTGTGGAG 179
                          ||||<span class="snp"><tt>&nbsp;</tt></span>|<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||
9279R-1.in silico     121 CAGC<span class="snp"><tt>G</tt></span>C<span class="snp"><tt>G</tt></span>ACGGGGCCAGAGCGAA<span class="snp"><tt>G</tt></span>CTTTCAAGGCGGAGTGGCAGTGGGAAGTCTGTGGAG 179


9279R-1.IR_full       181 GAGCAGGATAACCAGAGGGAGCAGCAGGCAAGCACATCTGGGAAAGTAAAGG<span class="snp"><tt>N</tt></span>CACTTCG 239
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||
9279R-1.in silico     181 GAGCAGGATAACCAGAGGGAGCAGCAGGCAAGCACATCTGGGAAAGTAAAGG<span class="snp"><tt>C</tt></span>CACTTCG 239


9279R-1.IR_full       241 T<span class="snp"><tt>N</tt></span>GACTCCATCACCGCAGCATAAGAACAGAAACACTCATTCCTCCATGGAAACGTCTTTG 299
                          |<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9279R-1.in silico     241 T<span class="snp"><tt>C</tt></span>GACTCCATCACCGCAGCATAAGAACAGAAACACTCATTCCTCCATGGAAACGTCTTTG 299


9279R-1.IR_full       301 GCTAAAACTTCTGGAAAATTTTTGGCGA<span class="snp"><tt>N</tt></span>TCATCAGCAACCATTAC<span class="snp"><tt>G</tt></span><span class="snp"><tt>T</tt></span>AGCTTCCAA<span class="snp"><tt>T</tt></span><span class="snp"><tt>T</tt></span><span class="snp"><tt>T</tt></span> 359
                          ||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>|||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>
9279R-1.in silico     301 GCTAAAACTTCTGGAAAATTTTTGGCGA<span class="snp"><tt>C</tt></span>TCATCAGCAACCATTAC<span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span>AGCTTCCAA<span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span> 359


9279R-1.IR_full       361 <span class="snp"><tt>T</tt></span><span class="snp"><tt>G</tt></span><span class="snp"><tt>T</tt></span>AGAATCCAGTGACTTGTGAAAGCAGTGTAAGGAATTCGCAGTCTAAAGAAACTGGAG 419
                          <span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9279R-1.in silico     361 <span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span>AGAATCCAGTGACTTGTGAAAGCAGTGTAAGGAATTCGCAGTCTAAAGAAACTGGAG 419


9279R-1.IR_full       421 AAGTAACCTTGTCTCCCAAGAAGTCATCAGATATTGAGCAATCAAAGAAGCATTCACAGC 479
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9279R-1.in silico     421 AAGTAACCTTGTCTCCCAAGAAGTCATCAGATATTGAGCAATCAAAGAAGCATTCACAGC 479


9279R-1.IR_full       481 AGGAAACAAACGAGACTAACCA<span class="snp"><tt>N</tt></span>GCCAGC 508
                          ||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||
9279R-1.in silico     481 AGGAAACAAACGAGACTAACCA<span class="snp"><tt>-</tt></span>GCCAGC 508

</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	0	0	0	NM_140867.1	CG9279-RA, transcript variant A (CG9279), mRNA
100	482	0	0	0	NM_168801.1	CG9279-RB, transcript variant B (CG9279), mRNA
0.41	2	2	3	5	NM_130534.2	CG14626-RA (CG14626), mRNA
0.2	1	2	4	2	NM_001032404.1	CG7649-RA, transcript variant A (Neu3), mRNA
0.2	1	2	4	2	NM_001032403.1	CG7649-RB, transcript variant B (Neu3), mRNA
0	0	7	4	2	NM_132986.4	CG8611-RA, transcript variant A (CG8611), mRNA
0	0	7	4	2	NM_176749.1	CG8611-RB, transcript variant B (CG8611), mRNA
0	0	3	2	3	NM_165220.1	CG6605-RA (BicD), mRNA
0	0	3	2	3	NM_143506.3	CG7921-RA, transcript variant A (Mgat2), mRNA
0	0	2	3	3	NM_133100.1	CG7095-RA (CG7095), mRNA
0	0	2	3	3	NM_057457.3	CG7109-RA (mts), mRNA
0	0	2	3	2	NM_166333.1	CG10737-RD, transcript variant D (CG10737), mRNA
0	0	2	3	2	NM_166334.1	CG10737-RA, transcript variant A (CG10737), mRNA
0	0	2	3	2	NM_166332.1	CG10737-RB, transcript variant B (CG10737), mRNA
0	0	2	3	2	NM_001014538.1	CG10737-RE, transcript variant E (CG10737), mRNA
0	0	2	3	2	NM_137554.2	CG10737-RC, transcript variant C (CG10737), mRNA
0	0	1	5	7	NM_206075.1	CG33477-RA (CG33477), mRNA
0	0	1	4	2	NM_143645.1	CG1976-RA (RhoGAP100F), mRNA
0	0	1	3	4	NM_165944.1	CG13148-RB, transcript variant B (CG13148), mRNA
0	0	1	3	4	NM_136967.1	CG13148-RA, transcript variant A (CG13148), mRNA
0	0	1	3	3	NM_057818.2	CG10637-RB, transcript variant B (Nak), mRNA
0	0	1	3	3	NM_057817.2	CG10637-RA, transcript variant A (Nak), mRNA
0	0	1	3	2	NM_164998.1	CG31860-RA (CG31860), mRNA
0	0	1	3	2	NM_001043240.1	CG34114-RB (CG34114), mRNA
0	0	1	2	4	NM_138219.1	CG13902-RA (CG13902), mRNA
0	0	1	2	2	NM_058088.3	CG8730-RA (drosha), mRNA
0	0	1	2	2	NM_170043.1	CG31052-RA (Tango12), mRNA
0	0	0	4	7	NM_169258.1	CG9755-RA, transcript variant A (pum), mRNA
0	0	0	4	7	NM_169259.1	CG9755-RD, transcript variant D (pum), mRNA
0	0	0	4	7	NM_079561.2	CG9755-RC, transcript variant C (pum), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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