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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 9005R-1

Symbol CG9005 Full Name CG9005

CG No CG9005 Old CG No CG9005

Synonyms BcDNA:GH05710, CG9005

Accession No (Link to NCBI) NM_136844.3

Inserted Chr. ll

Insertional Mutation lethal

Phenotype induced by Act5C-GAL4 at 28 degrees male lethal

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Reference
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Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgATGATACCGACAAGCGTCACC

Primer Seq. 3'

aatctagaggtaccTCTGGGCAGCCGGCGAAATCT

Predicted Fragment Size

IR fragment full Seq

0001 ATGATACCGA CAAGCGTCAC CAACTCACCG CCGCCAGCGG GTTTGGGCCA GAATGGAGCA 
0061 TCTGCCTCCT TGGGCTCGGC TACTGCGGCG GCCGGAGGAG GNATGCTGTC CGGCTTGGGA 
0121 ATGGTGGCGG TCTCTGGATG TGGGTCGGCA GGAACAGGAG CTCAGAATAA CTACGGTTCC 
0181 GTTGTGCTCG GCTTGGCCTC GCTAATCCTC GAGGGCAGAC CCATTGCCGA CGATGAGTAC 
0241 CAGCAGCAGA CGGTGGGAGT AGTCGGTTCA GGAGCAGCAA CAGCAGGATC TGGGGGAGGA 
0301 CNNCTATCGC CACGACCCTC CACCTCCAGG GCGGCCATTA ACATCACAAC GAATCCCTAT 
0361 GGTTCCATGG GAGGATCGGA AAATAGAGCC GTCAATGGAA GTGGTTCGAC TGGGTCGCCC 
0421 AGCAGTAGTT CGCTAACCCA CCAGCGATGG ACACAGAAgC TCTGCCAGCT GCGTCAGATT 
0481 TCGCCGGCTG CCCAGA

in silico PCR Fragment

0001 ATGATACCGA CAAGCGTCAC CAACTCACCG CCGCCAGCGG GTTTGGGCCA GAATGGAGCA 
0061 TCTGCCTCCT TGGGCTCGGC TACTGCGGCG GCCGGAGGAG GGATGCTGTC CGGCTTGGGA 
0121 ATGGTGGCGG TCTCTGGATG TGGGTCGGCA GGAACAGGAG CTCAGAATAA CTACGGTTCC 
0181 GTTGTGCTCG GCTTGGCCTC GCTAATCCTC GAGGGCAGAC CCATTGCCGA CGATGAGTAC 
0241 CAGCAGCAGA CGGTGGGAGT AGTCGGTTCA GGAGCAGCAA CAGCAGGATC TGGGGGAGGA 
0301 CGCCTATCGC CACGACCCTC CACCTCCAGG GCGGCCATTA ACATCACAAC GAATCCCTAT 
0361 GGTTCCATGG GAGGATCGGA AAATAGAGCC GTCAATGGAA GTGGTTCGAC TGGGTCGCCC 
0421 AGCAGTAGTT CGCTAACCCA CCAGCGATGG ACACAGAAGC TCTGCCAGCT GCGTCAGATT 
0481 TCGCCGGCTG CCCAGA

Assemble Data


9005R-1.IR_full       1   ATGATACCGACAAGCGTCACCAACTCACCGCCGCCAGCGGGTTTGGGCCAGAATGGAGCA 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     1   ATGATACCGACAAGCGTCACCAACTCACCGCCGCCAGCGGGTTTGGGCCAGAATGGAGCA 60


9005R-1.IR_full       61  TCTGCCTCCTTGGGCTCGGCTACTGCGGCGGCCGGAGGAGGNATGCTGTCCGGCTTGGGA 120
                          ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
9005R-1.in silico     61  TCTGCCTCCTTGGGCTCGGCTACTGCGGCGGCCGGAGGAGGGATGCTGTCCGGCTTGGGA 120


9005R-1.IR_full       121 ATGGTGGCGGTCTCTGGATGTGGGTCGGCAGGAACAGGAGCTCAGAATAACTACGGTTCC 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     121 ATGGTGGCGGTCTCTGGATGTGGGTCGGCAGGAACAGGAGCTCAGAATAACTACGGTTCC 180


9005R-1.IR_full       181 GTTGTGCTCGGCTTGGCCTCGCTAATCCTCGAGGGCAGACCCATTGCCGACGATGAGTAC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     181 GTTGTGCTCGGCTTGGCCTCGCTAATCCTCGAGGGCAGACCCATTGCCGACGATGAGTAC 240


9005R-1.IR_full       241 CAGCAGCAGACGGTGGGAGTAGTCGGTTCAGGAGCAGCAACAGCAGGATCTGGGGGAGGA 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     241 CAGCAGCAGACGGTGGGAGTAGTCGGTTCAGGAGCAGCAACAGCAGGATCTGGGGGAGGA 300


9005R-1.IR_full       301 CNNCTATCGCCACGACCCTCCACCTCCAGGGCGGCCATTAACATCACAACGAATCCCTAT 360
                          |  |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     301 CGCCTATCGCCACGACCCTCCACCTCCAGGGCGGCCATTAACATCACAACGAATCCCTAT 360


9005R-1.IR_full       361 GGTTCCATGGGAGGATCGGAAAATAGAGCCGTCAATGGAAGTGGTTCGACTGGGTCGCCC 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     361 GGTTCCATGGGAGGATCGGAAAATAGAGCCGTCAATGGAAGTGGTTCGACTGGGTCGCCC 420


9005R-1.IR_full       421 AGCAGTAGTTCGCTAACCCACCAGCGATGGACACAGAAGCTCTGCCAGCTGCGTCAGATT 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9005R-1.in silico     421 AGCAGTAGTTCGCTAACCCACCAGCGATGGACACAGAAGCTCTGCCAGCTGCGTCAGATT 480


9005R-1.IR_full       481 TCGCCGGCTGCCCAGA 496
                          ||||||||||||||||
9005R-1.in silico     481 TCGCCGGCTGCCCAGA 496

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	478	0	0	1	NM_136844.3	CG9005-RA (CG9005), mRNA
0.2	1	2	3	4	NM_166047.1	CG8603-RB, transcript variant B (CG8603), mRNA
0.2	1	2	3	4	NM_137108.2	CG8603-RA, transcript variant A (CG8603), mRNA
0	0	4	3	10	NM_080325.3	CG6450-RC (lva), mRNA
0	0	3	13	47	NM_132525.1	CG15740-RA (CG15740), mRNA
0	0	3	8	15	NM_167990.1	CG11494-RA, transcript variant A (BtbVII), mRNA
0	0	3	8	15	NM_079172.2	CG11494-RB, transcript variant B (BtbVII), mRNA
0	0	3	5	19	NM_169816.1	CG14307-RB, transcript variant B (fru), mRNA
0	0	3	5	19	NM_079673.2	CG14307-RF, transcript variant F (fru), mRNA
0	0	3	3	11	NM_078549.3	CG32688-RA, transcript variant A (Hk), mRNA
0	0	3	3	11	NM_167222.1	CG32688-RB, transcript variant B (Hk), mRNA
0	0	3	2	8	NM_130677.1	CG14418-RA (CG14418), mRNA
0	0	3	2	8	NM_142942.3	CG31140-RA, transcript variant A (CG31140), mRNA
0	0	3	2	7	NM_206553.1	CG31140-RB, transcript variant B (CG31140), mRNA
0	0	3	2	7	NM_206552.1	CG31140-RC, transcript variant C (CG31140), mRNA
0	0	2	17	55	NM_167231.3	CG17255-RB, transcript variant B (CG17255), mRNA
0	0	2	17	55	NM_132403.3	CG17255-RA, transcript variant A (CG17255), mRNA
0	0	2	9	38	NM_206091.1	CG7734-RD, transcript variant D (shn), mRNA
0	0	2	9	38	NM_057375.3	CG7734-RA, transcript variant A (shn), mRNA
0	0	2	9	38	NM_134279.2	CG7734-RB, transcript variant B (shn), mRNA
0	0	2	9	38	NM_057376.2	CG7734-RC, transcript variant C (shn), mRNA
0	0	2	5	37	NM_176556.1	CG33106-RA, transcript variant A (mask), mRNA
0	0	2	5	37	NM_176557.1	CG33106-RB, transcript variant B (mask), mRNA
0	0	2	4	11	NM_132093.2	CG3367-RA (CG3367), mRNA
0	0	2	4	5	NM_139705.1	CG10633-RA (CG10633), mRNA
0	0	2	4	2	NM_142592.1	CG4462-RA (CG4462), mRNA
0	0	2	3	10	NM_057685.3	CG11527-RA (Tig), mRNA
0	0	2	3	7	NM_169843.1	CG31222-RA (CG31222), mRNA
0	0	2	3	3	NM_001014673.1	CG6354-RG, transcript variant G (Rb97D), mRNA
0	0	2	3	3	NM_079796.3	CG6354-RB, transcript variant B (Rb97D), mRNA

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