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NIG-RNAi Strains Detail

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discarded

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

Stock ID

5258R-3

Symbol

NHP2

Full Name

NHP2

CG No

CG5258

Old CG No

CG5258

Synonyms

CG5258, FBgn0029148, NHP2

Accession No (Link to NCBI)

NM_143708.2

Inserted Chr.

lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

lethal

Map Viewer

Reference
[Please submit your publication]

Umemori M, Habara O, Iwata T, Maeda K, Nishinoue K, Okabe A, Takemura M, Takahashi K, Saigo K, Ueda R, Adachi-Yamada T.<br> RNAi-mediated knockdown showing impaired cell survival in Drosophila wing imaginal disc.<br> Gene Regul Syst Bio (2009) 3 11-20 [ PubMed ID = 19838331 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgTGGGCAAAGTGAAAGTAGAGC

Primer Seq. 3'

aatctagaggtaccACGGGTATGTTTAGTGCAGAC

Predicted Fragment Size

IR fragment full Seq

0001 TGGGCAAAGT GAAAGTAGAG CGCTCCGAGG ATGCCGATGA GTCCGTTGTG GCCAGCGGCG 
0061 ATGTTACCAT CAAGGAGGAG GAGTCCTACG ACGACAAGCT GATCTTTGTG AACGCCATCG 
0121 CGAAACCGAT GGCAGGTAAA AAACTGGCCA AAAAGTGCTA CAAACTGGTG AAGAAGGCCA 
0181 TGAAGCACAA GACTTTCCTG CGAAATGGAC TTAAGGATGT ACAGACTCGC CTGCGCAAGG 
0241 GCGAANACTG GCATTTGCAT CTTTGCTGGC GACGTTACAC CTGTGGACAT CATGTGCCAC 
0301 TTACCAGCCG TCTGCGAGGA GAAGGGCATC CCCTATACCT ACACCCCCAG TCGAGCGGAT 
0361 CTTGGAGCTG CCATGGGCGT GAAGCGCGGT ACAGTCGCCC TGCTGGTCCG CCAGAACGAG 
0421 GAGTACAAGG ATCTGTACGA CGAGGTCAAG GAGGAGCTGT CTGCACTAAA CATACCCGT

in silico PCR Fragment

0001 TGGGCAAAGT GAAAGTAGAG CGCTCCGAGG ATGCCGATGA GTCCGTTGTG GCCAGCGGCG 
0061 ATGTTACCAT CAAGGAGGAG GAGTCCTACG ACGACAAGCT GATCTTTGTG AACGCCATCG 
0121 CGAAACCGAT GGCAGGTAAA AAACTGGCCA AAAAGTGCTA CAAACTGGTG AAGAAGGCCA 
0181 TGAAGCACAA GACTTTCCTG CGAAATGGAC TTAAGGATGT ACAGACTCGC CTGCGCAAGG 
0241 GCGAA-ACTG GCATTTGCAT CTTTGCTGGC GACGTTACAC CTGTGGACAT CATGTGCCAC 
0301 TTACCAGCCG TCTGCGAGGA GAAGGGCATC CCCTATACCT ACACCCCCAG TCGAGCGGAT 
0361 CTTGGAGCTG CCATGGGCGT GAAGCGCGGT ACAGTCGCCC TGCTGGTCCG CCAGAACGAG 
0421 GAGTACAAGG ATCTGTACGA CGAGGTCAAG GAGGAGCTGT CTGCACTAAA CATACCCGT

Assemble Data

<PRE>

5258R-3.IR_full       1   TGGGCAAAGTGAAAGTAGAGCGCTCCGAGGATGCCGATGAGTCCGTTGTGGCCAGCGGCG 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     1   TGGGCAAAGTGAAAGTAGAGCGCTCCGAGGATGCCGATGAGTCCGTTGTGGCCAGCGGCG 60


5258R-3.IR_full       61  ATGTTACCATCAAGGAGGAGGAGTCCTACGACGACAAGCTGATCTTTGTGAACGCCATCG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     61  ATGTTACCATCAAGGAGGAGGAGTCCTACGACGACAAGCTGATCTTTGTGAACGCCATCG 120


5258R-3.IR_full       121 CGAAACCGATGGCAGGTAAAAAACTGGCCAAAAAGTGCTACAAACTGGTGAAGAAGGCCA 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     121 CGAAACCGATGGCAGGTAAAAAACTGGCCAAAAAGTGCTACAAACTGGTGAAGAAGGCCA 180


5258R-3.IR_full       181 TGAAGCACAAGACTTTCCTGCGAAATGGACTTAAGGATGTACAGACTCGCCTGCGCAAGG 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     181 TGAAGCACAAGACTTTCCTGCGAAATGGACTTAAGGATGTACAGACTCGCCTGCGCAAGG 240


5258R-3.IR_full       241 GCGAA<span class="snp"><tt>N</tt></span>ACTGGCATTTGCATCTTTGCTGGCGACGTTACACCTGTGGACATCATGTGCCAC 300
                          |||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     241 GCGAA<span class="snp"><tt>-</tt></span>ACTGGCATTTGCATCTTTGCTGGCGACGTTACACCTGTGGACATCATGTGCCAC 300


5258R-3.IR_full       301 TTACCAGCCGTCTGCGAGGAGAAGGGCATCCCCTATACCTACACCCCCAGTCGAGCGGAT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     301 TTACCAGCCGTCTGCGAGGAGAAGGGCATCCCCTATACCTACACCCCCAGTCGAGCGGAT 360


5258R-3.IR_full       361 CTTGGAGCTGCCATGGGCGTGAAGCGCGGTACAGTCGCCCTGCTGGTCCGCCAGAACGAG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     361 CTTGGAGCTGCCATGGGCGTGAAGCGCGGTACAGTCGCCCTGCTGGTCCGCCAGAACGAG 420


5258R-3.IR_full       421 GAGTACAAGGATCTGTACGACGAGGTCAAGGAGGAGCTGTCTGCACTAAACATACCCGT 479
                          |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5258R-3.in silico     421 GAGTACAAGGATCTGTACGACGAGGTCAAGGAGGAGCTGTCTGCACTAAACATACCCGT 479

</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	460	0	0	0	NM_143708.2	CG5258-RA (NHP2), mRNA
0.65	3	2	2	4	NM_139424.1	CG11814-RA (CG11814), mRNA
0	0	3	4	7	NM_141151.2	CG11370-RA (CG11370), mRNA
0	0	3	4	4	NM_142190.2	CG4931-RA (Sra-1), mRNA
0	0	2	3	3	NM_206385.1	CG33257-RA (CG33257), mRNA
0	0	2	2	5	NM_141279.2	CG12147-RA (CG12147), mRNA
0	0	1	7	8	NM_057328.3	CG3127-RA (Pgk), mRNA
0	0	1	6	3	NM_141578.1	CG8351-RA (CG8351), mRNA
0	0	1	5	13	NM_078670.2	CG7092-RA (Dhc16F), mRNA
0	0	1	5	7	NM_140532.2	CG7372-RA (CG7372), mRNA
0	0	1	5	3	NM_166506.1	CG13502-RB, transcript variant B (CG13502), mRNA
0	0	1	5	3	NM_137793.1	CG13502-RA, transcript variant A (CG13502), mRNA
0	0	1	4	11	NM_165841.1	CG9015-RB, transcript variant B (en), mRNA
0	0	1	4	11	NM_078976.3	CG9015-RA, transcript variant A (en), mRNA
0	0	1	4	2	NM_141944.1	CG5925-RA (desat2), mRNA
0	0	1	4	2	NM_137289.1	CG7813-RA (CG7813), mRNA
0	0	1	3	8	NM_169163.3	CG1980-RA, transcript variant A (dj), mRNA
0	0	1	3	8	NM_057872.4	CG1980-RB, transcript variant B (dj), mRNA
0	0	1	3	2	NM_057269.2	CG10236-RA (LanA), mRNA
0	0	1	2	7	NM_143561.2	CG1342-RA (CG1342), mRNA
0	0	1	2	4	NM_142773.1	CG7069-RA (CG7069), mRNA
0	0	1	2	4	NM_137805.1	CG11275-RA (CG11275), mRNA
0	0	1	2	2	NM_134907.2	CG3488-RA (CG3488), mRNA
0	0	1	2	2	NM_001043153.1	CG32434-RC, transcript variant C (siz), mRNA
0	0	1	2	2	NM_206407.1	CG32434-RA, transcript variant A (siz), mRNA
0	0	1	2	2	NM_168881.1	CG32434-RB, transcript variant B (siz), mRNA
0	0	1	1	1	NM_169491.1	CG7583-RC, transcript variant C (CtBP), mRNA
0	0	0	11	2	NM_132280.3	CG10648-RA (CG10648), mRNA
0	0	0	9	6	NM_130523.2	CG11638-RA (CG11638), mRNA
0	0	0	6	4	NM_136846.1	CG13198-RA (CG13198), mRNA