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NIG-RNAi Strains Detail

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

Stock ID

5272R-2

Symbol

gnu

Full Name

giant nuclei

CG No

CG5272

Old CG No

CG5272

Synonyms

CG5272, Gnu, gnu

Accession No (Link to NCBI)

NM_140469.2

Inserted Chr.

lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

viable

Map Viewer

Reference
[Please submit your publication]

Tiwari P, Kumar A, Das RN, Malhotra V, VijayRaghavan K.<br> A Tendon Cell Specific RNAi Screen Reveals Novel Candidates Essential for Muscle Tendon Interaction.<br> PLoS One (2015) 10(10) e0140976 [ PubMed ID = 26488612 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgCCACTTTGCCCCGTCGATTTT

Primer Seq. 3'

aatctagaggtaccGAAGAATTGCTTGGCCAGTTG

Predicted Fragment Size

IR fragment full Seq

0001 CCACTTTGCC CCGTCGATTT TCACAGAAAT TTATGCGCAC GCGTTCCGTA TTTTCGCCCA 
0061 CAAGTCAAAG TACCCTTATA AATGGGGAGA CCAGGCTACT GGGAGAATCT GGAGATTCGA 
0121 AACTACTGAG AACTAAGAGA GAAGACAGAC CAAAGCCGGA TATCCGACTG CAGCAGGAAA 
0181 CGCGGCTGAG GCAGGAGGAA TCCAAGTTGA AAAGTGCGCG AAAGATTAAA GTGGAGGACC 
0241 CAAGAAGTCC CACTCCCAGT ATCCATCATT CACGCTATAA GCCCTGCTCC CCGGTGGAGC 
0301 ACCCCACTTT GAGTCCTCGG GTCAAATCCC TGCTCGATCG CACCGGAAAC GCGCATCTCA 
0361 CAGAGCTGTT CACGCGCCAG GAGATCGACA TCGAGGTGCT CATCCAAATG ACCCTGGAGG 
0421 ACTTGGCGGC ACTGGGCGTT CGCGGCGCCC GGGAGATCCG ATTGGCCATG AATATTATCC 
0481 AACTGGCCAA GCAATTCTTC

in silico PCR Fragment

0001 CCACTTTGCC CCGTCGATTT TCACAGAAAT TTATGCGCAC GCGTTCCGTA TTTTCGCCCA 
0061 CAAGTCAAAG TACCCTTATA AATGGGGAGA CCAGGCTACT GGGAGAATCT GGAGATTCGA 
0121 AACTACTGAG AACTAAGAGA GAAGACAGAC CAAAGCCGGA TATCCGACTG CAGCAGGAAA 
0181 CGCGGCTGAG GCAGGAGGAA TCCAAGTTGA AAAGTGCGCG AAAGATTAAA GTGGAGGACC 
0241 CAAGAAGTCC CACTCCCAGT ATCCATCATT CACGCTATAA GCCCTGCTCC CCGGTGGAGC 
0301 ACCCCACTTT GAGTCCTCGG GTCAAATCCC TGCTCGATCG CACCGGAAAC GCGCATCTCA 
0361 CAGAGCTGTT CACGCGCCAG GAGATCGACA TCGAGGTGCT CATCCAAATG ACCCTGGAGG 
0421 ACTTGGCGGC ACTGGGCGTT CGCGGCGCCC GGGAGATCCG ATTGGCCATG AATATTATCC 
0481 AACTGGCCAA GCAATTCTTC

Assemble Data

<PRE>

5272R-2.IR_full       1   CCACTTTGCCCCGTCGATTTTCACAGAAATTTATGCGCACGCGTTCCGTATTTTCGCCCA 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     1   CCACTTTGCCCCGTCGATTTTCACAGAAATTTATGCGCACGCGTTCCGTATTTTCGCCCA 60


5272R-2.IR_full       61  CAAGTCAAAGTACCCTTATAAATGGGGAGACCAGGCTACTGGGAGAATCTGGAGATTCGA 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     61  CAAGTCAAAGTACCCTTATAAATGGGGAGACCAGGCTACTGGGAGAATCTGGAGATTCGA 120


5272R-2.IR_full       121 AACTACTGAGAACTAAGAGAGAAGACAGACCAAAGCCGGATATCCGACTGCAGCAGGAAA 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     121 AACTACTGAGAACTAAGAGAGAAGACAGACCAAAGCCGGATATCCGACTGCAGCAGGAAA 180


5272R-2.IR_full       181 CGCGGCTGAGGCAGGAGGAATCCAAGTTGAAAAGTGCGCGAAAGATTAAAGTGGAGGACC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     181 CGCGGCTGAGGCAGGAGGAATCCAAGTTGAAAAGTGCGCGAAAGATTAAAGTGGAGGACC 240


5272R-2.IR_full       241 CAAGAAGTCCCACTCCCAGTATCCATCATTCACGCTATAAGCCCTGCTCCCCGGTGGAGC 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     241 CAAGAAGTCCCACTCCCAGTATCCATCATTCACGCTATAAGCCCTGCTCCCCGGTGGAGC 300


5272R-2.IR_full       301 ACCCCACTTTGAGTCCTCGGGTCAAATCCCTGCTCGATCGCACCGGAAACGCGCATCTCA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     301 ACCCCACTTTGAGTCCTCGGGTCAAATCCCTGCTCGATCGCACCGGAAACGCGCATCTCA 360


5272R-2.IR_full       361 CAGAGCTGTTCACGCGCCAGGAGATCGACATCGAGGTGCTCATCCAAATGACCCTGGAGG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     361 CAGAGCTGTTCACGCGCCAGGAGATCGACATCGAGGTGCTCATCCAAATGACCCTGGAGG 420


5272R-2.IR_full       421 ACTTGGCGGCACTGGGCGTTCGCGGCGCCCGGGAGATCCGATTGGCCATGAATATTATCC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5272R-2.in silico     421 ACTTGGCGGCACTGGGCGTTCGCGGCGCCCGGGAGATCCGATTGGCCATGAATATTATCC 480


5272R-2.IR_full       481 AACTGGCCAAGCAATTCTTC 500
                          ||||||||||||||||||||
5272R-2.in silico     481 AACTGGCCAAGCAATTCTTC 500

</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_140469.2	CG5272-RA (gnu), mRNA
0.2	1	2	3	3	NM_170033.1	CG5248-RC, transcript variant C (loco), mRNA
0.2	1	2	3	3	NM_170032.2	CG5248-RB, transcript variant B (loco), mRNA
0.2	1	2	3	3	NM_170030.1	CG5248-RD, transcript variant D (loco), mRNA
0.2	1	2	3	3	NM_170031.1	CG5248-RA, transcript variant A (loco), mRNA
0	0	6	6	3	NM_078696.2	CG1467-RA (Syx16), mRNA
0	0	3	1	1	NM_137889.2	CG13533-RA (asrij), mRNA
0	0	2	2	3	NM_165152.1	CG5848-RA, transcript variant A (cact), mRNA
0	0	2	2	3	NM_057594.3	CG5848-RB, transcript variant B (cact), mRNA
0	0	2	2	3	NM_205999.1	CG5848-RD, transcript variant D (cact), mRNA
0	0	2	2	3	NM_057595.3	CG5848-RC, transcript variant C (cact), mRNA
0	0	1	4	2	NM_080714.3	CG8893-RA, transcript variant A (Gapdh2), mRNA
0	0	1	4	2	NM_080352.5	CG8893-RB, transcript variant B (Gapdh2), mRNA
0	0	1	3	6	NM_057619.3	CG3710-RA (TfIIS), mRNA
0	0	1	3	4	NM_136803.2	CG13217-RA (CG13217), mRNA
0	0	1	2	6	NM_140060.1	CG3445-RA (phol), mRNA
0	0	1	2	4	NM_133106.2	CG7288-RA (CG7288), mRNA
0	0	1	2	3	NM_169105.1	CG1193-RB, transcript variant B (CG1193), mRNA
0	0	1	2	3	NM_141329.2	CG1193-RA, transcript variant A (CG1193), mRNA
0	0	1	2	3	NM_079212.2	CG10578-RA, transcript variant A (DnaJ-1), mRNA
0	0	1	2	3	NM_168128.1	CG10578-RB, transcript variant B (DnaJ-1), mRNA
0	0	0	6	8	NM_079245.2	CG7436-RA (Nmt), mRNA
0	0	0	6	3	NM_080316.1	CG2655-RA (HLH3B), mRNA
0	0	0	5	5	NM_141742.2	CG6312-RA (Rfx), mRNA
0	0	0	5	3	NM_170639.1	CG17122-RA (CG17122), mRNA
0	0	0	4	8	NM_135258.1	CG4497-RA (CG4497), mRNA
0	0	0	4	6	NM_057303.4	CG7831-RA (ncd), mRNA
0	0	0	4	5	NM_134609.1	CG10918-RA (CG10918), mRNA
0	0	0	4	3	NM_001042792.1	CG3019-RD, transcript variant D (su(w[a])), mRNA
0	0	0	4	3	NM_206600.1	CG3019-RC, transcript variant C (su(w[a])), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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