NIG-Fly - Fly Stocks of National Institute of Genetics -

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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

9655R-2

Symbol

nes

Full Name

nessy

CG No

CG9655

Old CG No

CG9655

Synonyms

CG9655, nes

Accession No (Link to NCBI)

NM_079433.2

Inserted Chr.

lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

viable

Map Viewer

Reference
[Please submit your publication]

Nakaoka T, Iga M, Yamada T, Koujima I, Takeshima M, Zhou X, Suzuki Y, Ogihara MH, Kataoka H.<br> Deep sequencing of the prothoracic gland transcriptome reveals new players in insect ecdysteroidogenesis.<br> PLoS One (2017) 12(3) e0172951 [ PubMed ID = 28257485 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgTTCGAGGAGGACTTGCCCCAC

Primer Seq. 3'

aatctagaggtaccGGCGGTTTCTTCAGCGCAGTT

Predicted Fragment Size

IR fragment full Seq

0001 TTCGAGGAGG ACTTGCCCCA CAATGGCCTG ATGGACGGGA TCGCCTCGGG AGTGGGCGTT 
0061 CCCGTCGGAG GNACTCCGGC TGCTACTCAC CATTCTGGCA GGTTATCCGG TGGCAGCATT 
0121 ATATCAAAAA TTTATTTCTG TTATTGCCGA TAAAACAGTG CATCACATGT TCTTTGCTGG 
0181 ATGCGGCGCT GGATTGTGTT ACTTTAACTA TGGGCGCGAC ACATATCACT CACTGATAGC 
0241 CATCCTAACC ACCTATTTCC TGGTACTCCT CCTGCGAAAG AAGACGCAGA TATTTCTGGC 
0301 CATCAACTTC GTTTTCCATA TGAGCTACCT GCTGCTGGGA TATTTCTACA CGTCCAGCAA 
0361 TGATTACGAT ATTCTGTGGA CGATGCCTCA CTGCATTTTG GTTCTACGAA TGATTGGCTA 
0421 TGGTTTTGAC ATCACCGACG GCCTGAAAGA GGAGTCGGAA TTGTCTAAGG ACCAAAAGGA 
0481 AACTGCGCTG AAGANNCNGC C

in silico PCR Fragment

0001 TTCGAGGAGG ACTTGCCCCA CAATGGCCTG ATGGACGGGA TCGCCTCGGG AGTGGGCGTT 
0061 CCCGT-GGAG GCACTCCGGC TGCTACTCAC CATTCTGGCA GGTTATCCGG TGGCAGCATT 
0121 ATATCAAAAA TTTATTTCTG TTATTGCCGA TAAAACAGTG CATCACATGT TCTTTGCTGG 
0181 ATGCGGCGCT GGATTGTGTT ACTTTAACTA TGGGCTCGAC ACATATCACT CACTGATAGC 
0241 CATCCTAACC ACCTATTTCC TGGTACTCCT CCTGCGAAAG AAGACGCAGA TATTTCTGGC 
0301 CATCAACTTC GTTTTCCATA TGAGCTACCT GCTGCTGGGA TATTTCTACA CGTCCAGCAA 
0361 TGATTACGAT ATTCTGTGGA CGATGCCTCA CTGCATTTTG GTTCTACGAA TGATTGGCTA 
0421 TGGTTTTGAC ATCACCGACG GCCTGAAAGA GGAGTCGGAA TTGTCTAAGG ACCAAAAGGA 
0481 AACTGCGCTG AAGAAACCGC C

Assemble Data

<PRE>

9655R-2.IR_full       1   TTCGAGGAGGACTTGCCCCACAATGGCCTGATGGACGGGATCGCCTCGGGAGTGGGCGTT 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     1   TTCGAGGAGGACTTGCCCCACAATGGCCTGATGGACGGGATCGCCTCGGGAGTGGGCGTT 60


9655R-2.IR_full       61  CCCGT<span class="snp"><tt>C</tt></span>GGAGG<span class="snp"><tt>N</tt></span>ACTCCGGCTGCTACTCACCATTCTGGCAGGTTATCCGGTGGCAGCATT 120
                          |||||<span class="snp"><tt>&nbsp;</tt></span>|||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     61  CCCGT<span class="snp"><tt>-</tt></span>GGAGG<span class="snp"><tt>C</tt></span>ACTCCGGCTGCTACTCACCATTCTGGCAGGTTATCCGGTGGCAGCATT 120


9655R-2.IR_full       121 ATATCAAAAATTTATTTCTGTTATTGCCGATAAAACAGTGCATCACATGTTCTTTGCTGG 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     121 ATATCAAAAATTTATTTCTGTTATTGCCGATAAAACAGTGCATCACATGTTCTTTGCTGG 180


9655R-2.IR_full       181 ATGCGGCGCTGGATTGTGTTACTTTAACTATGGGC<span class="snp"><tt>G</tt></span>CGACACATATCACTCACTGATAGC 240
                          |||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||
9655R-2.in silico     181 ATGCGGCGCTGGATTGTGTTACTTTAACTATGGGC<span class="snp"><tt>T</tt></span>CGACACATATCACTCACTGATAGC 240


9655R-2.IR_full       241 CATCCTAACCACCTATTTCCTGGTACTCCTCCTGCGAAAGAAGACGCAGATATTTCTGGC 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     241 CATCCTAACCACCTATTTCCTGGTACTCCTCCTGCGAAAGAAGACGCAGATATTTCTGGC 300


9655R-2.IR_full       301 CATCAACTTCGTTTTCCATATGAGCTACCTGCTGCTGGGATATTTCTACACGTCCAGCAA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     301 CATCAACTTCGTTTTCCATATGAGCTACCTGCTGCTGGGATATTTCTACACGTCCAGCAA 360


9655R-2.IR_full       361 TGATTACGATATTCTGTGGACGATGCCTCACTGCATTTTGGTTCTACGAATGATTGGCTA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     361 TGATTACGATATTCTGTGGACGATGCCTCACTGCATTTTGGTTCTACGAATGATTGGCTA 420


9655R-2.IR_full       421 TGGTTTTGACATCACCGACGGCCTGAAAGAGGAGTCGGAATTGTCTAAGGACCAAAAGGA 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9655R-2.in silico     421 TGGTTTTGACATCACCGACGGCCTGAAAGAGGAGTCGGAATTGTCTAAGGACCAAAAGGA 480


9655R-2.IR_full       481 AACTGCGCTGAAGA<span class="snp"><tt>N</tt></span><span class="snp"><tt>N</tt></span>C<span class="snp"><tt>N</tt></span>GCC 501
                          ||||||||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>|<span class="snp"><tt>&nbsp;</tt></span>|||
9655R-2.in silico     481 AACTGCGCTGAAGA<span class="snp"><tt>A</tt></span><span class="snp"><tt>A</tt></span>C<span class="snp"><tt>C</tt></span>GCC 501

</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_079433.2	CG9655-RA, transcript variant A (nes), mRNA
100	482	0	0	0	NM_176349.1	CG9655-RC, transcript variant C (nes), mRNA
100	482	0	0	0	NM_168788.2	CG9655-RB, transcript variant B (nes), mRNA
0	0	3	2	4	NM_141985.1	CG7381-RA, transcript variant A (CG7381), mRNA
0	0	3	2	4	NM_169485.1	CG7381-RB, transcript variant B (CG7381), mRNA
0	0	2	5	2	NM_080378.2	CG7381-RB, transcript variant B (CG7381), mRNA,2-N-acetylglucosaminyltransferase I CG13431-RA (Mgat1), mRNA
0	0	2	3	5	NM_176777.1	CG14616-RC, transcript variant C (l(1)G0196), mRNA
0	0	2	3	5	NM_176778.1	CG14616-RD, transcript variant D (l(1)G0196), mRNA
0	0	2	3	5	NM_176779.1	CG14616-RA, transcript variant A (l(1)G0196), mRNA
0	0	2	2	5	NM_169202.1	CG11094-RA, transcript variant A (dsx), mRNA
0	0	2	2	5	NM_169203.1	CG11094-RB, transcript variant B (dsx), mRNA
0	0	2	2	3	NM_001043116.1	CG10579-RF, transcript variant F (Eip63E), mRNA
0	0	2	2	3	NM_001043082.1	CG11798-RC, transcript variant C (chn), mRNA
0	0	2	2	3	NM_079180.2	CG10579-RD, transcript variant D (Eip63E), mRNA
0	0	2	2	3	NM_206119.1	CG11798-RB, transcript variant B (chn), mRNA
0	0	2	2	3	NM_001043081.1	CG11798-RD, transcript variant D (chn), mRNA
0	0	2	2	3	NM_137169.3	CG11798-RA, transcript variant A (chn), mRNA
0	0	1	5	2	NM_132209.1	CG2256-RB (CG2256), mRNA
0	0	1	3	2	NM_135934.2	CG4892-RA (CG4892), mRNA
0	0	1	2	3	NM_079662.2	CG5400-RA (Eh), mRNA
0	0	1	2	2	NM_141017.2	CG12983-RA (CG12983), mRNA
0	0	1	2	2	NM_206237.1	CG12022-RA (CG12022), mRNA
0	0	1	1	1	NM_164664.2	CG31645-RA (CG31645), mRNA
0	0	0	7	3	NM_134601.1	CG1718-RA (CG1718), mRNA
0	0	0	5	3	NM_057377.3	CG9949-RA, transcript variant A (sina), mRNA
0	0	0	5	3	NM_168689.1	CG9949-RB, transcript variant B (sina), mRNA
0	0	0	5	3	NM_132440.2	CG2145-RA (CG2145), mRNA
0	0	0	5	2	NM_078856.2	CG4838-RA (beat-Ic), mRNA
0	0	0	5	2	NM_137538.1	CG15100-RA (CG15100), mRNA
0	0	0	4	10	NM_135214.2	CG11098-RA, transcript variant A (Tango1), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

dme00564 : Glycerophospholipid metabolism

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