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

5684R-4

Symbol

Pop2

Full Name

Pop2

CG No

CG5684

Old CG No

CG5684

Synonyms

CAF1, CG5684, POP2, Pop2

Accession No (Link to NCBI)

NM_140281.2

Inserted Chr.

lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

semi-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.<br> A combined ex vivo and in vivo RNAi screen for notch regulators in Drosophila reveals an extensive notch interaction network.<br> 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'

aaggcctacatggccggaccgATGAAATGGACAATGCCCTCG

Primer Seq. 3'

aatctagaggtaccAGCCACTTGATGTTTTCCACC

Predicted Fragment Size

IR fragment full Seq

0001 ATGAAATGGA CAATGCCCTC GGcCATCAGT GGCGCGCCAc ATGCCCACAT ACCCAGCAAC 
0061 GAGGAGTGCG GCATCCGCGA TGTGTGGAAG CAAAACCTGG AGGAGGAGTT CCGCACCATA 
0121 CGGAAAGTGG TGCAGAAGTA CCACTATGTG GCCATGGACA CCGAGTTTCC AGGCGTGGTA 
0181 GCACGTCCAG TCGGCGAGTT CCGCTCCACG GCGGACTATC ATTACCAGCT GCTGCGCTGT 
0241 AATGTCGATC TGCTGCGGAT TATCCAATTG GGCCTTACCT TCATGGACGA CGATGGAAAG 
0301 ACACCACCCG GCTACTCCAC CTGGCAGTTC AACTTCAAGT TTAACCTGAG CGAGGACATG 
0361 TATGCGCAGG ACTCGATCGA TCTGCTGCAG AACTCCGGAA TTCAGTTCAA GAAGCACGAG 
0421 GAGGATGGCA TCGATCCCAT CNNCTTCGCC GAACTGCTGA TGAGCTCTGG CATCGTGCTG 
0481 GTGGAAAACA TCAAGTGGCT

in silico PCR Fragment

0001 ATGAAATGGA CAATGCCCTC GGCCATCAGT GGCGCGCCAC ATGCCCACAT ACCCAGCAAC 
0061 GAGGAGTGCG GCATCCGCGA TGTGTGGAAG CAAAACCTGG AGGAGGAGTT CCGCACCATA 
0121 CGGAAAGTGG TGCAGAAGTA CCACTATGTG GCCATGGACA CCGAGTTTCC AGGCGTGGTA 
0181 GCACGTCCAG TCGGCGAGTT CCGCTCCACG GCGGACTATC ATTACCAGCT GCTGCGCTGT 
0241 AATGTCGATC TGCTGCGGAT TATCCAATTG GGCCTTACCT TCATGGACGA CGATGGAAAG 
0301 ACACCACCCG GCTACTCCAC CTGGCAGTTC AACTTCAAGT TTAACCTGAG CGAGGACATG 
0361 TATGCGCAGG ACTCGATCGA TCTGCTGCAG AACTCCGGAA TTCAGTTCAA GAAGCACGAG 
0421 GAGGATGGCA TCGATCCCAT CGACTTCGCC GAACTGCTGA TGAGCTCTGG CATCGTGCTG 
0481 GTGGAAAACA TCAAGTGGCT

Assemble Data

<PRE>

5684R-4.IR_full       1   ATGAAATGGACAATGCCCTCGGCCATCAGTGGCGCGCCACATGCCCACATACCCAGCAAC 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     1   ATGAAATGGACAATGCCCTCGGCCATCAGTGGCGCGCCACATGCCCACATACCCAGCAAC 60


5684R-4.IR_full       61  GAGGAGTGCGGCATCCGCGATGTGTGGAAGCAAAACCTGGAGGAGGAGTTCCGCACCATA 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     61  GAGGAGTGCGGCATCCGCGATGTGTGGAAGCAAAACCTGGAGGAGGAGTTCCGCACCATA 120


5684R-4.IR_full       121 CGGAAAGTGGTGCAGAAGTACCACTATGTGGCCATGGACACCGAGTTTCCAGGCGTGGTA 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     121 CGGAAAGTGGTGCAGAAGTACCACTATGTGGCCATGGACACCGAGTTTCCAGGCGTGGTA 180


5684R-4.IR_full       181 GCACGTCCAGTCGGCGAGTTCCGCTCCACGGCGGACTATCATTACCAGCTGCTGCGCTGT 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     181 GCACGTCCAGTCGGCGAGTTCCGCTCCACGGCGGACTATCATTACCAGCTGCTGCGCTGT 240


5684R-4.IR_full       241 AATGTCGATCTGCTGCGGATTATCCAATTGGGCCTTACCTTCATGGACGACGATGGAAAG 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     241 AATGTCGATCTGCTGCGGATTATCCAATTGGGCCTTACCTTCATGGACGACGATGGAAAG 300


5684R-4.IR_full       301 ACACCACCCGGCTACTCCACCTGGCAGTTCAACTTCAAGTTTAACCTGAGCGAGGACATG 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     301 ACACCACCCGGCTACTCCACCTGGCAGTTCAACTTCAAGTTTAACCTGAGCGAGGACATG 360


5684R-4.IR_full       361 TATGCGCAGGACTCGATCGATCTGCTGCAGAACTCCGGAATTCAGTTCAAGAAGCACGAG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
5684R-4.in silico     361 TATGCGCAGGACTCGATCGATCTGCTGCAGAACTCCGGAATTCAGTTCAAGAAGCACGAG 420


5684R-4.IR_full       421 GAGGATGGCATCGATCCCATC<span class="snp"><tt>N</tt></span><span class="snp"><tt>N</tt></span>CTTCGCCGAACTGCTGATGAGCTCTGGCATCGTGCTG 480
                          |||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||||
5684R-4.in silico     421 GAGGATGGCATCGATCCCATC<span class="snp"><tt>G</tt></span><span class="snp"><tt>A</tt></span>CTTCGCCGAACTGCTGATGAGCTCTGGCATCGTGCTG 480


5684R-4.IR_full       481 GTGGAAAACATCAAGTGGCT 500
                          ||||||||||||||||||||
5684R-4.in silico     481 GTGGAAAACATCAAGTGGCT 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	6	NM_140281.2	CG5684-RA, transcript variant A (Pop2), mRNA
98.13	473	1	1	7	NM_168485.1	CG5684-RC, transcript variant C (Pop2), mRNA
98.13	473	1	1	7	NM_168484.1	CG5684-RB, transcript variant B (Pop2), mRNA
0	0	3	2	3	NM_139969.2	CG7015-RA (Unr), mRNA
0	0	3	2	2	NM_001038878.1	CG2956-RB, transcript variant B (twi), mRNA
0	0	3	2	2	NM_079092.2	CG2956-RA, transcript variant A (twi), mRNA
0	0	2	4	6	NM_078605.1	CG6211-RA (gce), mRNA
0	0	2	4	2	NM_141324.1	CG1098-RA (Madm), mRNA
0	0	2	3	3	NM_141072.2	CG7177-RA (CG7177), mRNA
0	0	2	3	2	NM_136089.2	CG17492-RA (mib2), mRNA
0	0	2	3	2	NM_079703.2	CG3593-RA (r-l), mRNA
0	0	2	2	10	NM_176446.1	CG33208-RD, transcript variant D (MICAL), mRNA
0	0	2	2	10	NM_176448.1	CG33208-RG, transcript variant G (MICAL), mRNA
0	0	2	2	10	NM_176449.1	CG33208-RH, transcript variant H (MICAL), mRNA
0	0	2	2	10	NM_176445.1	CG33208-RC, transcript variant C (MICAL), mRNA
0	0	2	2	10	NM_176447.1	CG33208-RF, transcript variant F (MICAL), mRNA
0	0	2	2	10	NM_176444.1	CG33208-RB, transcript variant B (MICAL), mRNA
0	0	2	2	10	NM_176443.1	CG33208-RE, transcript variant E (MICAL), mRNA
0	0	2	2	5	NM_142215.2	CG5205-RA (CG5205), mRNA
0	0	2	2	2	NM_132121.2	CG3135-RA (shf), mRNA
0	0	2	2	2	NM_142195.1	CG6194-RA (CG6194), mRNA
0	0	1	5	5	NM_169246.2	CG31349-RC, transcript variant C (pyd), mRNA
0	0	1	5	5	NM_169245.2	CG31349-RA, transcript variant A (pyd), mRNA
0	0	1	5	5	NM_057349.4	CG31349-RB, transcript variant B (pyd), mRNA
0	0	1	5	5	NM_176426.2	CG31349-RF, transcript variant F (pyd), mRNA
0	0	1	5	5	NM_170646.3	CG31349-RE, transcript variant E (pyd), mRNA
0	0	1	4	7	NM_141566.1	CG8159-RA (CG8159), mRNA
0	0	1	2	4	NM_131998.2	CG3239-RA, transcript variant A (CG3239), mRNA
0	0	1	2	4	NM_167038.1	CG3239-RB, transcript variant B (CG3239), mRNA
0	0	1	2	4	NM_079470.2	CG10564-RA (Ac78C), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

dme03018 : RNA degradation

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