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

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NIG-RNAi Strains Detail

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

Stock ID 11184R-3

Symbol Upf3 Full Name Upf3

CG No CG11184 Old CG No CG11184

Synonyms UPF3, CG11184, Upf3

Accession No (Link to NCBI) NM_166629.1

Inserted Chr. lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees larval lethal

Map Viewer

Reference
[Please submit your publication] Saj A, Arziman Z, Stempfle D, van Belle W, Sauder U, Horn T, Dürrenberger M, Paro R, Boutros M, Merdes G.
A combined ex vivo and in vivo RNAi screen for notch regulators in Drosophila reveals an extensive notch interaction network.
Dev Cell (2010) 18(5) 862-76 [ PubMed ID = 20493818 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgCGCTTCGACGGCTACGTCTTC

Primer Seq. 3'

aatctagaggtaccCGCGAGGCCTTGGCATCATTG

Predicted Fragment Size

IR fragment full Seq

0001 CGCTTCGACG GCTACGTCTT CGTCGACCAC AAGGGCGTCG AGTACATGGC CATCGTGGAG 
0061 TATGCTCCCT TCCAGTGCTT CCTTAAGAAC AAGGCCAGGA ACGACGACAG CAAGGTGAAC 
0121 ACCATCGAGA GCGAACCCCA CTACCAGGAG TTCATCAAGC GGCTGGCCCA AGAGCGCGAG 
0181 GAGGCGAGTC GCATGGGAGA CGTCAAGATC GACTTCAACT TCGAACGGCG AACAGAGGAG 
0241 AAGGTCAAGT CTACACCCCT CCTGCAGTAC CTGGCCAACA AGAAGGAGAA GCGCCGGGAG 
0301 GAGGCGCGCA GGCGGAACGA GGAGAAGCGG AAGCAACGCG ATGGAGCAGA AGCTGTTGCG 
0361 ATTGGCAGcG CAGTCGGACG CCAGCAAGCT TAAGGAGGCC GAAGGAGGCG GCGGAGGAGG 
0421 AGACACGAAG AAGCCAGCCA AAAAGGATGT CAAAGATCCG CAGTCATCTG GATCCCAAGC 
0481 CAATGATGCC AAGGCCTCGC G

in silico PCR Fragment

0001 CGCTTCGACG GCTACGTCTT CGTCGACCAC AAGGGCGTCG AGTACATGGC CATCGTGGAG 
0061 TATGCTCCCT TCCAGTGCTT CCTTAAGAAC AAGGCCAGGA ACGACGACAG CAAGGTGAAC 
0121 ACCATCGAGA GCGAACCCCA CTACCAGGAG TTCATCAAGC GGCTGGCCCA AGAGCGCGAG 
0181 GAGGCGAGTC GCATGGGCGA CGTCAAGATC GACTTCAACT TCGAACGGCG AACAGAAGAG 
0241 AAGGTCAAGT CTACACCCCT CCTGCAGTAC CTGGCCAACA AGAAGGAGAA GCGCCGGGAG 
0301 GAGGCGCGCA GGCGGAACGA GGAGAAGCGG AAGCAACGCG A-GGAGCAGA AGCTGTTGCG 
0361 ATTGGCAGCG CAGTCGGACG CCAGCAAGCT TAAGGAGGCC GAAGGAGGCG GCGGAGGAGG 
0421 AGACACGAAG AAGCCAGCCA AAAAGGATGT CAAAGATCCG CAGTCATCTG GATCCCAAGC 
0481 CAATGATGCC AAGGCCTCGC G

Assemble Data


11184R-3.IR_full       1   CGCTTCGACGGCTACGTCTTCGTCGACCACAAGGGCGTCGAGTACATGGCCATCGTGGAG 60
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     1   CGCTTCGACGGCTACGTCTTCGTCGACCACAAGGGCGTCGAGTACATGGCCATCGTGGAG 60


11184R-3.IR_full       61  TATGCTCCCTTCCAGTGCTTCCTTAAGAACAAGGCCAGGAACGACGACAGCAAGGTGAAC 120
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     61  TATGCTCCCTTCCAGTGCTTCCTTAAGAACAAGGCCAGGAACGACGACAGCAAGGTGAAC 120


11184R-3.IR_full       121 ACCATCGAGAGCGAACCCCACTACCAGGAGTTCATCAAGCGGCTGGCCCAAGAGCGCGAG 180
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     121 ACCATCGAGAGCGAACCCCACTACCAGGAGTTCATCAAGCGGCTGGCCCAAGAGCGCGAG 180


11184R-3.IR_full       181 GAGGCGAGTCGCATGGGAGACGTCAAGATCGACTTCAACTTCGAACGGCGAACAGAGGAG 240
                           ||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||
11184R-3.in silico     181 GAGGCGAGTCGCATGGGCGACGTCAAGATCGACTTCAACTTCGAACGGCGAACAGAAGAG 240


11184R-3.IR_full       241 AAGGTCAAGTCTACACCCCTCCTGCAGTACCTGGCCAACAAGAAGGAGAAGCGCCGGGAG 300
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     241 AAGGTCAAGTCTACACCCCTCCTGCAGTACCTGGCCAACAAGAAGGAGAAGCGCCGGGAG 300


11184R-3.IR_full       301 GAGGCGCGCAGGCGGAACGAGGAGAAGCGGAAGCAACGCGATGGAGCAGAAGCTGTTGCG 360
                           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
11184R-3.in silico     301 GAGGCGCGCAGGCGGAACGAGGAGAAGCGGAAGCAACGCGA-GGAGCAGAAGCTGTTGCG 360


11184R-3.IR_full       361 ATTGGCAGCGCAGTCGGACGCCAGCAAGCTTAAGGAGGCCGAAGGAGGCGGCGGAGGAGG 420
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     361 ATTGGCAGCGCAGTCGGACGCCAGCAAGCTTAAGGAGGCCGAAGGAGGCGGCGGAGGAGG 420


11184R-3.IR_full       421 AGACACGAAGAAGCCAGCCAAAAAGGATGTCAAAGATCCGCAGTCATCTGGATCCCAAGC 480
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
11184R-3.in silico     421 AGACACGAAGAAGCCAGCCAAAAAGGATGTCAAAGATCCGCAGTCATCTGGATCCCAAGC 480


11184R-3.IR_full       481 CAATGATGCCAAGGCCTCGCG 501
                           |||||||||||||||||||||
11184R-3.in silico     481 CAATGATGCCAAGGCCTCGCG 501

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	2	NM_166629.1	CG11184-RB, transcript variant B (Upf3), mRNA
100	482	0	0	2	NM_138000.2	CG11184-RC, transcript variant C (Upf3), mRNA
0.41	2	3	5	11	NM_168576.1	CG32138-RB, transcript variant B (CG32138), mRNA
0.41	2	3	5	11	NM_168575.1	CG32138-RA, transcript variant A (CG32138), mRNA
0.2	1	3	3	5	NM_138181.1	CG13882-RA (CG13882), mRNA
0.2	1	2	7	22	NM_001014706.1	CG13376-RA (CG13376), mRNA
0	0	6	6	7	NM_078725.2	CG4276-RD, transcript variant D (aru), mRNA
0	0	6	6	7	NM_164395.1	CG4276-RC, transcript variant C (aru), mRNA
0	0	6	6	7	NM_164393.1	CG4276-RA, transcript variant A (aru), mRNA
0	0	5	9	26	NM_133104.2	CG7282-RA (CG7282), mRNA
0	0	5	6	19	NM_141129.1	CG11523-RA (CG11523), mRNA
0	0	4	5	5	NM_169843.1	CG31222-RA (CG31222), mRNA
0	0	3	11	24	NM_167340.1	CG32648-RA (Pde9), mRNA
0	0	3	8	11	NM_079818.2	CG10002-RA (fkh), mRNA
0	0	3	3	4	NM_141438.2	CG10068-RA (CG10068), mRNA
0	0	3	2	6	NM_132159.1	CG1677-RA (CG1677), mRNA
0	0	2	7	5	NM_141104.1	CG14564-RA (CG14564), mRNA
0	0	2	6	21	NM_080147.2	CG5965-RA (woc), mRNA
0	0	2	6	13	NM_141374.1	CG1154-RA (Osi12), mRNA
0	0	2	6	4	NM_138213.2	CG13897-RA (CG13897), mRNA
0	0	2	5	8	NM_134718.4	CG31795-RA, transcript variant A (ia2), mRNA
0	0	2	5	8	NM_164401.3	CG31795-RB, transcript variant B (ia2), mRNA
0	0	2	4	13	NM_135754.2	CG9933-RA (A16), mRNA
0	0	2	4	7	NM_079007.2	CG17716-RA (fas), mRNA
0	0	2	3	14	NM_079824.2	CG18741-RB, transcript variant B (DopR2), mRNA
0	0	2	3	14	NM_170420.1	CG18741-RA, transcript variant A (DopR2), mRNA
0	0	2	3	11	NM_132991.1	CG12432-RA (CG12432), mRNA
0	0	2	3	8	NM_169874.1	CG4608-RA (bnl), mRNA
0	0	2	3	6	NM_001014571.1	CG33556-RA (form3), mRNA
0	0	2	3	5	NM_135614.2	CG17134-RA (CG17134), mRNA

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