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 4314R-3

Symbol st Full Name scarlet

CG No CG4314 Old CG No CG4314

Synonyms CG4314, st

Accession No (Link to NCBI) NM_079384.2

Inserted Chr. lll

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'

aaggcctacatggccggaccgATTGCAGGTGATGCCGGTGGG

Primer Seq. 3'

aatctagaggtaccGGCGACGCTCCTCTTTCGACA

Predicted Fragment Size

IR fragment full Seq

0001 ATTGCAGGTG ATGCCGGTgG GNAGcaCCAT TGAGGTgNCC AGCTTGGACA GCACACCCAA 
0061 GCTATCGAAA CGGAACAGTT CGGAGAGAAG TCTACCGCTC AGGAGCTACA GCAAATGGTC 
0121 GCCCACGGAG CAGGGAGCCA CTCTGGTGTG GCGNGNATCT CTGCGTCTAT ACCAATGTCG 
0181 GTGGTTCCGG TCAGCGGATG AAGCGGATCA TCAACAACTC AACGGGGGCC ATTCAACCGG 
0241 GCACTCTGAT GGCTCTAATG GGCTCGAGTG GCTCTGGGAA AACAACACTC ATGTCAACGC 
0301 TCGCCTTTCG ACAGCCGGCC GGGACCGTCG TTCAAGGCGA CATTCTGATA AACGGCCGGC 
0361 GCATTGGGCC CTTCATGCAT CGCATCAGCG GCTACGTCTA CCAGGATGAC CTCTTCCTCG 
0421 GATCGCTGAC TGTTCTCGAG CACTTGAACT TTATGGCACA TCTcCGCCTG GATCGTCGGG 
0481 TGTCGAAAGA GGANNGTCNC C

in silico PCR Fragment

0001 ATTGCAGGTG ATGCCGGTGG GCAGCACCAT TGAGGTGCCC AGCTTGGACA GCACACCCAA 
0061 GCTATCGAAA CGGAACAGTT CGGAGAGAAG TCTACCGCTC AGGAGCTACA GCAAATGGTC 
0121 GCCCACGGAG CAGGGAGCCA CTCTGGTGTG GCG-GGATCT CTGCGTCTAT ACCAATGTCG 
0181 GTGGTTCCGG TCAGCGGATG AAGCGGATCA TCAACAACTC AACGGGGGCC ATTCAACCGG 
0241 GCACTCTGAT GGCTCTAATG GGCTCGAGTG GCTCTGGGAA AACAACACTC ATGTCAACGC 
0301 TCGCCTTTCG ACAGCCGGCC GGGACCGTCG TTCAAGGCGA CATTCTGATA AACGGCCGGC 
0361 GCATTGGGCC CTTCATGCAT CGCATCAGCG GCTACGTCTA CCAGGATGAC CTCTTCCTCG 
0421 GATCGCTGAC TGTTCTCGAG CACTTGAACT TTATGGCACA TCTCCGCCTG GATCGTCGGG 
0481 TGTCGAAAGA GGAGCGTCGC C

Assemble Data


4314R-3.IR_full       1   ATTGCAGGTGATGCCGGTGGGNAGCACCATTGAGGTGNCCAGCTTGGACAGCACACCCAA 60
                          ||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||||||
4314R-3.in silico     1   ATTGCAGGTGATGCCGGTGGGCAGCACCATTGAGGTGCCCAGCTTGGACAGCACACCCAA 60


4314R-3.IR_full       61  GCTATCGAAACGGAACAGTTCGGAGAGAAGTCTACCGCTCAGGAGCTACAGCAAATGGTC 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     61  GCTATCGAAACGGAACAGTTCGGAGAGAAGTCTACCGCTCAGGAGCTACAGCAAATGGTC 120


4314R-3.IR_full       121 GCCCACGGAGCAGGGAGCCACTCTGGTGTGGCGNGNATCTCTGCGTCTATACCAATGTCG 180
                          ||||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||
4314R-3.in silico     121 GCCCACGGAGCAGGGAGCCACTCTGGTGTGGCG-GGATCTCTGCGTCTATACCAATGTCG 180


4314R-3.IR_full       181 GTGGTTCCGGTCAGCGGATGAAGCGGATCATCAACAACTCAACGGGGGCCATTCAACCGG 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     181 GTGGTTCCGGTCAGCGGATGAAGCGGATCATCAACAACTCAACGGGGGCCATTCAACCGG 240


4314R-3.IR_full       241 GCACTCTGATGGCTCTAATGGGCTCGAGTGGCTCTGGGAAAACAACACTCATGTCAACGC 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     241 GCACTCTGATGGCTCTAATGGGCTCGAGTGGCTCTGGGAAAACAACACTCATGTCAACGC 300


4314R-3.IR_full       301 TCGCCTTTCGACAGCCGGCCGGGACCGTCGTTCAAGGCGACATTCTGATAAACGGCCGGC 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     301 TCGCCTTTCGACAGCCGGCCGGGACCGTCGTTCAAGGCGACATTCTGATAAACGGCCGGC 360


4314R-3.IR_full       361 GCATTGGGCCCTTCATGCATCGCATCAGCGGCTACGTCTACCAGGATGACCTCTTCCTCG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     361 GCATTGGGCCCTTCATGCATCGCATCAGCGGCTACGTCTACCAGGATGACCTCTTCCTCG 420


4314R-3.IR_full       421 GATCGCTGACTGTTCTCGAGCACTTGAACTTTATGGCACATCTCCGCCTGGATCGTCGGG 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4314R-3.in silico     421 GATCGCTGACTGTTCTCGAGCACTTGAACTTTATGGCACATCTCCGCCTGGATCGTCGGG 480


4314R-3.IR_full       481 TGTCGAAAGAGGANNGTCNCC 501
                          |||||||||||||  ||| ||
4314R-3.in silico     481 TGTCGAAAGAGGAGCGTCGCC 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	8	NM_079384.2	CG4314-RA (st), mRNA
0	0	2	3	3	NM_206015.1	CG9331-RE, transcript variant E (CG9331), mRNA
0	0	2	3	3	NM_136218.2	CG9331-RB, transcript variant B (CG9331), mRNA
0	0	2	3	3	NM_176067.1	CG9331-RD, transcript variant D (CG9331), mRNA
0	0	2	3	3	NM_165345.1	CG9331-RA, transcript variant A (CG9331), mRNA
0	0	2	3	3	NM_176066.2	CG9331-RC, transcript variant C (CG9331), mRNA
0	0	1	7	9	NM_057981.3	CG4063-RA (ebi), mRNA
0	0	1	3	7	NM_058041.2	CG12467-RA (CG12467), mRNA
0	0	1	3	6	NM_078610.2	CG11678-RA (Actr13E), mRNA
0	0	1	3	5	NM_001043156.1	CG8779-RB, transcript variant B (nrm), mRNA
0	0	1	3	5	NM_079494.3	CG8779-RA, transcript variant A (nrm), mRNA
0	0	1	3	2	NM_058055.3	CG1935-RA (JTBR), mRNA
0	0	1	3	2	NM_078934.2	CG8714-RA (sut1), mRNA
0	0	1	2	2	NM_169141.1	CG1021-RA, transcript variant A (CG1021), mRNA
0	0	1	2	2	NM_141397.2	CG1021-RB, transcript variant B (CG1021), mRNA
0	0	1	2	2	NM_135605.2	CG6729-RA (CG6729), mRNA
0	0	0	10	6	NM_142415.2	CG7780-RA (DNaseII), mRNA
0	0	0	7	5	NM_206074.1	CG12908-RB, transcript variant B (Ndg), mRNA
0	0	0	7	5	NM_136731.1	CG12908-RA, transcript variant A (Ndg), mRNA
0	0	0	7	4	NM_137795.1	CG6613-RA (CG6613), mRNA
0	0	0	6	10	NM_079412.2	CG5123-RA (W), mRNA
0	0	0	6	2	NM_132529.2	CG2025-RA (CG2025), mRNA
0	0	0	6	2	NM_057357.2	CG1569-RA (rod), mRNA
0	0	0	5	4	NM_165598.1	CG30369-RA (CG30369), mRNA
0	0	0	4	14	NM_132335.2	CG12139-RB (CG12139), mRNA
0	0	0	4	10	NM_057439.2	CG2759-RA (w), mRNA
0	0	0	4	6	NM_142221.1	CG18516-RA (CG18516), mRNA
0	0	0	4	3	NM_169946.1	CG17299-RA, transcript variant A (SNF4Agamma), mRNA
0	0	0	4	3	NM_080509.2	CG17299-RB, transcript variant B (SNF4Agamma), mRNA
0	0	0	4	3	NM_001043274.1	CG17299-RI, transcript variant I (SNF4Agamma), mRNA

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