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NIG-RNAi Strains Detail

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

Stock ID

13030R-2

Symbol

CG13030

Full Name

CG13030

CG No

CG13030

Old CG No

CG13030

Synonyms

anon-WO0140519.228, CG13030

Accession No (Link to NCBI)

NM_140670.1

Inserted Chr.

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

viable

Map Viewer

Reference
[Please submit your publication]

Du J, Zhang J, Su Y, Liu M, Ospina JK, Yang S, Zhu AJ.<br> In vivo RNAi screen reveals neddylation genes as novel regulators of Hedgehog signaling.<br> 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'

aaggcctacatggccggaccgTATTGACACTCCAACGGCATC

Primer Seq. 3'

aatctagaggtaccATTCGCAATCCTCCTCGTGCT

Predicted Fragment Size

IR fragment full Seq

0001 TATTGACACT CCAACGGCAT CCGGAGAAAT GTTGACTCGT CGTCAATCGG CACCAGCGTT 
0061 GGTCGTGCCG CCGGAGGAGN ACCACGCACG TTGTGGTGGT CAAGCGGCAA TCCCCGGACG 
0121 CANGCCGCTG CCGGAGAACT GGTGCCATCT AGGCGGAAGG ACTCGGTGGC TGTGCAGTCG 
0181 GGAATTGTGG CCACTGGGCC ATNTGGACAC AACACGCAGT GGTGCAAGAG ACGATTTTCT 
0241 AATGGCTTTG CTCGAGTGCC CGGTGTGCTT TGGCTACATA ATGCCGCCAA TTATGCAGTG 
0301 CCCGCGTGGC CACCTCATCT GCTCCACCTG CCGCTCAAAG TTGACCATTT GCCCCGTCNT 
0361 GCCGGGTGTT CATGACCAAC ATCCGCAGCC TGGCAATGGA GAAGGTGGCC TCCAAGCTGA 
0421 TCTTTCCCTG CAAGCATTCG CATTTCGGCT GCAGAGCGCG NGCTCTCTTA CGCAGAGAAG 
0481 ACCAAGCACG AGGAGGATTG CGAAT

in silico PCR Fragment

0001 TATTGACACT CCAACGGCAT CCGGAGAAAT GTTGACTCGT CGTCAATCGG CACCAGCGTT 
0061 GGTCGTGCCG CCGGAGGAG- ACCACGCACG TTGTGGTGGT CAAGCGGCAA TCCCCGGACG 
0121 CA-GCCGCTG CCGGAGAACT GGTGCCGTCT AGGCGGAAGG ACTCGGTGGC TGTGCAGTCG 
0181 GGAATTGTGG CCACTGGGCC AT-TGGACAC AACACGCAGT GGTGCAAGAG ACGATTTTCT 
0241 AATGGCTTTG CTCGAGTGCC CGGTGTGCTT TGGCTACATA ATGCCGCCAA TTATGCAGTG 
0301 CCCGCGTGGC CACCTCATCT GCTCCACCTG CCGCTCAAAG TTGACCATTT GCCCCGTC-T 
0361 GCCGGGTGTT CATGACCAAC ATCCGCAGCC TGGCAATGGA GAAGGTGGCC TCCAAGCTGA 
0421 TCTTTCCCTG CAAGCATTCG CATTTCGGCT GCAGAGCGCG -GCTCTCTTA CGCAGAGAAG 
0481 ACCAAGCACG AGGAGGATTG CGAAT

Assemble Data

<PRE>

13030R-2.IR_full       1   TATTGACACTCCAACGGCATCCGGAGAAATGTTGACTCGTCGTCAATCGGCACCAGCGTT 60
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
13030R-2.in silico     1   TATTGACACTCCAACGGCATCCGGAGAAATGTTGACTCGTCGTCAATCGGCACCAGCGTT 60


13030R-2.IR_full       61  GGTCGTGCCGCCGGAGGAG<span class="snp"><tt>N</tt></span>ACCACGCACGTTGTGGTGGTCAAGCGGCAATCCCCGGACG 120
                           |||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||
13030R-2.in silico     61  GGTCGTGCCGCCGGAGGAG<span class="snp"><tt>-</tt></span>ACCACGCACGTTGTGGTGGTCAAGCGGCAATCCCCGGACG 120


13030R-2.IR_full       121 CA<span class="snp"><tt>N</tt></span>GCCGCTGCCGGAGAACTGGTGCC<span class="snp"><tt>A</tt></span>TCTAGGCGGAAGGACTCGGTGGCTGTGCAGTCG 180
                           ||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||
13030R-2.in silico     121 CA<span class="snp"><tt>-</tt></span>GCCGCTGCCGGAGAACTGGTGCC<span class="snp"><tt>G</tt></span>TCTAGGCGGAAGGACTCGGTGGCTGTGCAGTCG 180


13030R-2.IR_full       181 GGAATTGTGGCCACTGGGCCAT<span class="snp"><tt>N</tt></span>TGGACACAACACGCAGTGGTGCAAGAGACGATTTTCT 240
                           ||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||||
13030R-2.in silico     181 GGAATTGTGGCCACTGGGCCAT<span class="snp"><tt>-</tt></span>TGGACACAACACGCAGTGGTGCAAGAGACGATTTTCT 240


13030R-2.IR_full       241 AATGGCTTTGCTCGAGTGCCCGGTGTGCTTTGGCTACATAATGCCGCCAATTATGCAGTG 300
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
13030R-2.in silico     241 AATGGCTTTGCTCGAGTGCCCGGTGTGCTTTGGCTACATAATGCCGCCAATTATGCAGTG 300


13030R-2.IR_full       301 CCCGCGTGGCCACCTCATCTGCTCCACCTGCCGCTCAAAGTTGACCATTTGCCCCGTC<span class="snp"><tt>N</tt></span>T 360
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|
13030R-2.in silico     301 CCCGCGTGGCCACCTCATCTGCTCCACCTGCCGCTCAAAGTTGACCATTTGCCCCGTC<span class="snp"><tt>-</tt></span>T 360


13030R-2.IR_full       361 GCCGGGTGTTCATGACCAACATCCGCAGCCTGGCAATGGAGAAGGTGGCCTCCAAGCTGA 420
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
13030R-2.in silico     361 GCCGGGTGTTCATGACCAACATCCGCAGCCTGGCAATGGAGAAGGTGGCCTCCAAGCTGA 420


13030R-2.IR_full       421 TCTTTCCCTGCAAGCATTCGCATTTCGGCTGCAGAGCGCG<span class="snp"><tt>N</tt></span>GCTCTCTTACGCAGAGAAG 480
                           ||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||
13030R-2.in silico     421 TCTTTCCCTGCAAGCATTCGCATTTCGGCTGCAGAGCGCG<span class="snp"><tt>-</tt></span>GCTCTCTTACGCAGAGAAG 480


13030R-2.IR_full       481 ACCAAGCACGAGGAGGATTGCGAAT 505
                           |||||||||||||||||||||||||
13030R-2.in silico     481 ACCAAGCACGAGGAGGATTGCGAAT 505

</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_140670.1	CG13030-RA (CG13030), mRNA
0	0	2	5	3	NM_166072.1	CG10205-RA, transcript variant A (CG10205), mRNA
0	0	2	5	3	NM_137149.2	CG10205-RB, transcript variant B (CG10205), mRNA
0	0	2	4	6	NM_001043030.1	CG17800-RX, transcript variant X (Dscam), mRNA
0	0	2	4	6	NM_001043028.1	CG17800-RR, transcript variant R (Dscam), mRNA
0	0	2	3	5	NM_167544.1	CG9623-RA, transcript variant A (if), mRNA
0	0	2	3	5	NM_078654.2	CG9623-RB, transcript variant B (if), mRNA
0	0	2	3	3	NM_143154.3	CG5053-RA (CG5053), mRNA
0	0	1	5	5	NM_138184.4	CG32344-RA (CG32344), mRNA
0	0	1	5	3	NM_079274.2	CG4167-RA (Hsp67Ba), mRNA
0	0	1	4	2	NM_142174.1	CG6623-RA (CG6623), mRNA
0	0	1	3	4	NM_142607.1	CG4390-RA, transcript variant A (CG4390), mRNA
0	0	1	3	4	NM_169887.1	CG4390-RB, transcript variant B (CG4390), mRNA
0	0	1	3	4	NM_169157.1	CG1034-RD, transcript variant D (bcd), mRNA
0	0	1	3	4	NM_176410.1	CG1034-RG, transcript variant G (bcd), mRNA
0	0	1	3	4	NM_176411.1	CG1034-RF, transcript variant F (bcd), mRNA
0	0	1	3	4	NM_169159.2	CG1034-RE, transcript variant E (bcd), mRNA
0	0	1	3	3	NM_001015323.1	CG14578-PA.3 (CG14578), mRNA
0	0	1	3	3	NM_001015324.1	CG14578-PB.3 (CG14578), mRNA
0	0	1	3	3	NM_057477.3	CG1034-RA, transcript variant A (bcd), mRNA
0	0	1	3	3	NM_001015325.1	CG14578-PC.3 (CG14578), mRNA
0	0	1	3	3	NM_001015326.1	CG14578-PD.3 (CG14578), mRNA
0	0	1	3	2	NM_078590.2	CG1771-RB, transcript variant B (mew), mRNA
0	0	1	2	9	NM_001031964.1	CG13702-RC, transcript variant C (AlCR2), mRNA
0	0	1	2	9	NM_140782.4	CG13702-RB, transcript variant B (AlCR2), mRNA
0	0	1	2	6	NM_001043101.1	CG3682-RC, transcript variant C (PIP5K59B), mRNA
0	0	1	2	6	NM_137885.2	CG3682-RA, transcript variant A (PIP5K59B), mRNA
0	0	1	2	4	NM_206518.1	CG4720-RB, transcript variant B (Pk92B), mRNA
0	0	1	2	4	NM_057741.3	CG4720-RA, transcript variant A (Pk92B), mRNA
0	0	1	2	3	NM_143452.1	CG1911-RA (CAP-D2), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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