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 5920R-2

Symbol sop Full Name string of pearls

CG No CG5920 Old CG No CG5920

Synonyms RpS2, S2, unnamed, dS2, Dm01335, l(2)k04603, l(2)03848, anon-EST:Posey202, CG5920, sop

Accession No (Link to NCBI) NM_057526.3

Inserted Chr. ll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees lethal

Map Viewer

Reference
[Please submit your publication] Cho Y, Lai CM, Lin KY, Hsu HJ.
A Targeted RNAi Screen Reveals Drosophila Female-Sterile Genes That Control the Size of Germline Stem Cell Niche During Development.
G3 (Bethesda) (2018) 8(7) 2345-2354 [ PubMed ID = 29764959 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgGCTCCAGCCCGTAGTGGATTC

Primer Seq. 3'

aatctagaggtaccCACTTGCCGGTGACCTTGCAG

Predicted Fragment Size

IR fragment full Seq

0001 GCTCCAGCCC GTAGTGGATT CCGTGGCGGA TTTGGCTCTC GTGGTGGTCG TGGTGGACGC 
0061 GGTCGTGGCC GTGGACGCTG GGCCCGTGGA CGTGGAAAGG AGGACTCCAA GGAGTGGGTG 
0121 CCAGTGACCA AGCTAGGACG CCTGGTGCGC GAGGGCAAGA TCAAGTCTTT GGAGGAGATC 
0181 TACCTGTACT CGCTTCCCAT CAAAGAGTTC GAGATCATCG ACTTCTTCCT GGGATCCTCG 
0241 CTGAAGGATG AGGTGCTGAA GATCATGCCC GTCCAGAAGC AGACCCGTGC TGGTCAGCGT 
0301 ACCCGTTTCA AGGCCTTCGT TgNCATCGGC GACAACAATG GCCACATTGG TCTGGGCGTT 
0361 AAGTGCAGCA AGGAAGTgGC CACCGCCATC CGTGGTGCCA TCATTCTgGC CAAGCTCTCC 
0421 GTGGTGCCCG TGCgCCGTGG CTACTGGGGC AACAAGATCg GCAAGCCCCA CANCCGTgCC 
0481 CTGCAAGGTC ACCGGCAANG Tg

in silico PCR Fragment

0001 GCTCCAGCCC GTAGTGGATT CCGTGGCGGA TTTGGCTCTC GTGGTGGTCG TGGTGGACGC 
0061 GGTCGTGGCC GTGGACGCTG GGCCCGTGGA CGTGGAAAGG AGGACTCCAA GGAGTGGGTG 
0121 CCAGTGACCA AGCTGGGACG CCTGGTGCGC GAGGGCAAGA TCAAGTCTTT GGAGGAGATC 
0181 TACCTGTACT CGCTTCCCAT CAAAGAGTTC GAGATCATCG ACTTCTTCCT GGGATCCTCG 
0241 CTGAAGGATG AGGTGCTGAA GATCATGCCC GTCCAGAAGC AGACCCGTGC TGGTCAGCGT 
0301 ACCCGTTTCA AGGCCTTCGT TGCCATCGGC GACAACAATG GCCACATTGG TCTGGGCGTT 
0361 AAGTGCAGCA AGGAAGTGGC CACCGCCATC CGTGGTGCCA TCATTCTGGC CAAGCTCTCC 
0421 GTGGTGCCCG TGCGCCGTGG CTACTGGGGC AACAAGATCG GCAAGCCCCA CA-CCGTGCC 
0481 CTGCAAGGTC ACCGGCAA-G TG

Assemble Data


5920R-2.IR_full       1   GCTCCAGCCCGTAGTGGATTCCGTGGCGGATTTGGCTCTCGTGGTGGTCGTGGTGGACGC 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     1   GCTCCAGCCCGTAGTGGATTCCGTGGCGGATTTGGCTCTCGTGGTGGTCGTGGTGGACGC 60


5920R-2.IR_full       61  GGTCGTGGCCGTGGACGCTGGGCCCGTGGACGTGGAAAGGAGGACTCCAAGGAGTGGGTG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     61  GGTCGTGGCCGTGGACGCTGGGCCCGTGGACGTGGAAAGGAGGACTCCAAGGAGTGGGTG 120


5920R-2.IR_full       121 CCAGTGACCAAGCTAGGACGCCTGGTGCGCGAGGGCAAGATCAAGTCTTTGGAGGAGATC 180
                          |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     121 CCAGTGACCAAGCTGGGACGCCTGGTGCGCGAGGGCAAGATCAAGTCTTTGGAGGAGATC 180


5920R-2.IR_full       181 TACCTGTACTCGCTTCCCATCAAAGAGTTCGAGATCATCGACTTCTTCCTGGGATCCTCG 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     181 TACCTGTACTCGCTTCCCATCAAAGAGTTCGAGATCATCGACTTCTTCCTGGGATCCTCG 240


5920R-2.IR_full       241 CTGAAGGATGAGGTGCTGAAGATCATGCCCGTCCAGAAGCAGACCCGTGCTGGTCAGCGT 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     241 CTGAAGGATGAGGTGCTGAAGATCATGCCCGTCCAGAAGCAGACCCGTGCTGGTCAGCGT 300


5920R-2.IR_full       301 ACCCGTTTCAAGGCCTTCGTTGNCATCGGCGACAACAATGGCCACATTGGTCTGGGCGTT 360
                          |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
5920R-2.in silico     301 ACCCGTTTCAAGGCCTTCGTTGCCATCGGCGACAACAATGGCCACATTGGTCTGGGCGTT 360


5920R-2.IR_full       361 AAGTGCAGCAAGGAAGTGGCCACCGCCATCCGTGGTGCCATCATTCTGGCCAAGCTCTCC 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5920R-2.in silico     361 AAGTGCAGCAAGGAAGTGGCCACCGCCATCCGTGGTGCCATCATTCTGGCCAAGCTCTCC 420


5920R-2.IR_full       421 GTGGTGCCCGTGCGCCGTGGCTACTGGGGCAACAAGATCGGCAAGCCCCACANCCGTGCC 480
                          |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
5920R-2.in silico     421 GTGGTGCCCGTGCGCCGTGGCTACTGGGGCAACAAGATCGGCAAGCCCCACA-CCGTGCC 480


5920R-2.IR_full       481 CTGCAAGGTCACCGGCAANGTG 502
                          |||||||||||||||||| |||
5920R-2.in silico     481 CTGCAAGGTCACCGGCAA-GTG 502

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_057526.3	CG5920-RA (sop), mRNA
0	0	3	2	2	NM_169492.1	CG7583-RD, transcript variant D (CtBP), mRNA
0	0	3	2	2	NM_169490.1	CG7583-RB, transcript variant B (CtBP), mRNA
0	0	3	2	2	NM_169491.1	CG7583-RC, transcript variant C (CtBP), mRNA
0	0	3	2	2	NM_079612.2	CG7583-RA, transcript variant A (CtBP), mRNA
0	0	3	2	2	NM_001014617.1	CG7583-RE, transcript variant E (CtBP), mRNA
0	0	2	3	8	NM_133127.1	CG7453-RA, transcript variant A (CG7453), mRNA
0	0	2	3	8	NM_167639.1	CG7453-RB, transcript variant B (CG7453), mRNA
0	0	2	3	4	NR_001945.1	CR32489, miscRNA
0	0	2	2	8	NM_167335.1	CG4013-RC, transcript variant C (Smr), mRNA
0	0	2	2	8	NM_167334.1	CG4013-RB, transcript variant B (Smr), mRNA
0	0	2	2	8	NM_080536.2	CG4013-RA, transcript variant A (Smr), mRNA
0	0	2	2	6	NM_132059.2	CG4766-RA (CG4766), mRNA
0	0	2	2	6	NM_079432.2	CG9750-RA (rept), mRNA
0	0	2	2	2	NM_141570.2	CG9801-RA, transcript variant A (CG9801), mRNA
0	0	2	2	2	NM_206462.1	CG9801-RC, transcript variant C (CG9801), mRNA
0	0	2	2	2	NM_169239.1	CG9801-RB, transcript variant B (CG9801), mRNA
0	0	1	8	11	NM_136549.1	CG14752-RA (CG14752), mRNA
0	0	1	7	73	NM_170227.2	CG31439-RA (CG31439), mRNA
0	0	1	6	10	NM_001032249.1	CG30084-RF, transcript variant F (CG30084), mRNA
0	0	1	4	14	NM_130546.2	CG11409-RB (CG11409), mRNA
0	0	1	4	5	NM_135131.1	CG13992-RA (CG13992), mRNA
0	0	1	3	13	NM_168294.1	CG32030-RB, transcript variant B (CG32030), mRNA
0	0	1	3	13	NM_168293.1	CG32030-RA, transcript variant A (CG32030), mRNA
0	0	1	3	8	NM_001014624.1	CG33555-RC, transcript variant C (btsz), mRNA
0	0	1	3	6	NM_080140.2	CG3923-RA (Exp6), mRNA
0	0	1	3	6	NM_169038.1	CG32464-RJ, transcript variant J (l(3)82Fd), mRNA
0	0	1	3	6	NM_143760.2	CG32464-RB, transcript variant B (l(3)82Fd), mRNA
0	0	1	3	6	NM_169039.2	CG32464-RL, transcript variant L (l(3)82Fd), mRNA
0	0	1	3	6	NM_001043213.1	CG32464-RP, transcript variant P (l(3)82Fd), mRNA

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