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NIG-RNAi Strains Detail

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

Stock ID

4623R-1

Symbol

CG4623

Full Name

CG4623

CG No

CG4623

Old CG No

CG4623

Synonyms

CG4623

Accession No (Link to NCBI)

NM_139688.2

Inserted Chr.

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

viable

Map Viewer

Reference
[Please submit your publication]

Umetsu D, Dunst S, Dahmann C.<br> An RNA interference screen for genes required to shape the anteroposterior compartment boundary in Drosophila identifies the Eph receptor.<br> PLoS One (2014) 9(12) e114340 [ PubMed ID = 25473846 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgACTTCAAGGCTCCCGATCTGC

Primer Seq. 3'

aatctagaggtaccTTTGGTCGCCTGTTCGTCCAC

Predicted Fragment Size

IR fragment full Seq

0001 ACTTCAAGGC TCCCGATCTG CCGGCCAATA AGCCAGTGCT CTTCTTCCAT CCGTACAACT 
0061 TCCATGCGCA AAAAGTTCTT ATGGTCTTCT ACGAGAAGAA GATCGACTTC TTTCCCTATG 
0121 TGGTGGACCT GTGCAATGGC GAGCAGTACT CCAATTGGTT CCTAAACCTC AATCCCAAGG 
0181 GCGATGTGCC AGTGCTCCAG GATGGCGCCC TCGTCATTCC CAGCTCGACG CACATCATCA 
0241 ACTATGTGGA GAGCAAATTT CGCGGTGATC GATCGCTGAA NGCCAGCGCA CAACTCCAAG 
0301 GAATTCGATC AGATGCTGGT CTTCGAGCAG GCAATGGCCC GCCTTCCGGT GGGAACACTC 
0361 AGCCTGGGCT CCTTCATACA CGACGATCTG AAGCTGGTGC CCAAGGCGCC CTNTCATCGG 
0421 ACCCGTGCGC CAGTCCTGCC TGAAAAACAA TGAAAAGGTG CTGGATCTGC TGCGCCACTC 
0481 GGTGGACGAA cAGGCGACCA AA

in silico PCR Fragment

0001 ACTTCAAGGC TCCCGATCTG CCGGCCAATA AGCCAGTGCT CTTCTTCCAT CCGTACAACT 
0061 TCCATGCGCA AAAAGTTCTT ATGGTCTTCT ACGAGAAGAA GATCGACTTC TTTCCCTATG 
0121 TGGTGGACCT GTGCAATGGC GAGCAGTACT CCAATTGGTT CCTAAACCTC AATCCCAAGG 
0181 GCGATGTGCC AGTGCTCCAG GATGGCGCCC TCGTCATTCC CAGCTCGACG CACATCATCA 
0241 ACTATGTGGA GAGCAAATTT CGCGGTGATC GATCGCTGAA -GCCAGCGCA CAACTCCAAG 
0301 GAATTCGATC AAATGCTGAT CTTCGAGCAG GCAATGGCCC GCCTTCCAGT GGGAACACTC 
0361 AGCCTGGGCT CCTTCATACA CGACGATCTG AAGCTGGTGC CCAAGGCGCC CT-TCATCGG 
0421 ACCCGTGCGC CAGTCCTGCC TGAAAAACAA TGAAAAGGTG CTGGATCTGC TGCGCCACTC 
0481 GGTGGACGAA CAGGCGACCA AA

Assemble Data

<PRE>

4623R-1.IR_full       1   ACTTCAAGGCTCCCGATCTGCCGGCCAATAAGCCAGTGCTCTTCTTCCATCCGTACAACT 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4623R-1.in silico     1   ACTTCAAGGCTCCCGATCTGCCGGCCAATAAGCCAGTGCTCTTCTTCCATCCGTACAACT 60


4623R-1.IR_full       61  TCCATGCGCAAAAAGTTCTTATGGTCTTCTACGAGAAGAAGATCGACTTCTTTCCCTATG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4623R-1.in silico     61  TCCATGCGCAAAAAGTTCTTATGGTCTTCTACGAGAAGAAGATCGACTTCTTTCCCTATG 120


4623R-1.IR_full       121 TGGTGGACCTGTGCAATGGCGAGCAGTACTCCAATTGGTTCCTAAACCTCAATCCCAAGG 180
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4623R-1.in silico     121 TGGTGGACCTGTGCAATGGCGAGCAGTACTCCAATTGGTTCCTAAACCTCAATCCCAAGG 180


4623R-1.IR_full       181 GCGATGTGCCAGTGCTCCAGGATGGCGCCCTCGTCATTCCCAGCTCGACGCACATCATCA 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4623R-1.in silico     181 GCGATGTGCCAGTGCTCCAGGATGGCGCCCTCGTCATTCCCAGCTCGACGCACATCATCA 240


4623R-1.IR_full       241 ACTATGTGGAGAGCAAATTTCGCGGTGATCGATCGCTGAA<span class="snp"><tt>N</tt></span>GCCAGCGCACAACTCCAAG 300
                          ||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||
4623R-1.in silico     241 ACTATGTGGAGAGCAAATTTCGCGGTGATCGATCGCTGAA<span class="snp"><tt>-</tt></span>GCCAGCGCACAACTCCAAG 300


4623R-1.IR_full       301 GAATTCGATCA<span class="snp"><tt>G</tt></span>ATGCTG<span class="snp"><tt>G</tt></span>TCTTCGAGCAGGCAATGGCCCGCCTTCC<span class="snp"><tt>G</tt></span>GTGGGAACACTC 360
                          |||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||
4623R-1.in silico     301 GAATTCGATCA<span class="snp"><tt>A</tt></span>ATGCTG<span class="snp"><tt>A</tt></span>TCTTCGAGCAGGCAATGGCCCGCCTTCC<span class="snp"><tt>A</tt></span>GTGGGAACACTC 360


4623R-1.IR_full       361 AGCCTGGGCTCCTTCATACACGACGATCTGAAGCTGGTGCCCAAGGCGCCCT<span class="snp"><tt>N</tt></span>TCATCGG 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||
4623R-1.in silico     361 AGCCTGGGCTCCTTCATACACGACGATCTGAAGCTGGTGCCCAAGGCGCCCT<span class="snp"><tt>-</tt></span>TCATCGG 420


4623R-1.IR_full       421 ACCCGTGCGCCAGTCCTGCCTGAAAAACAATGAAAAGGTGCTGGATCTGCTGCGCCACTC 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
4623R-1.in silico     421 ACCCGTGCGCCAGTCCTGCCTGAAAAACAATGAAAAGGTGCTGGATCTGCTGCGCCACTC 480


4623R-1.IR_full       481 GGTGGACGAACAGGCGACCAAA 502
                          ||||||||||||||||||||||
4623R-1.in silico     481 GGTGGACGAACAGGCGACCAAA 502

</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_139688.2	CG4623-RA (CG4623), mRNA
0.41	2	3	1	3	NM_144346.2	CG6264-RA (Best1), mRNA
0	0	3	2	4	NM_001032051.1	CG33715-RD, transcript variant D (Msp-300), mRNA
0	0	3	2	4	NM_001032053.1	CG33715-RB, transcript variant B (Msp-300), mRNA
0	0	3	2	3	NM_080337.2	CG6899-RA, transcript variant A (Ptp4E), mRNA
0	0	3	2	3	NM_167024.1	CG6899-RB, transcript variant B (Ptp4E), mRNA
0	0	2	3	6	NM_166100.1	CG30471-RA (CG30471), mRNA
0	0	2	3	2	NM_141206.3	CG9855-RA (CG9855), mRNA
0	0	2	2	2	NM_135083.2	CG6634-RA (mid), mRNA
0	0	1	5	2	NM_164547.1	CG2808-RB, transcript variant B (CG2808), mRNA
0	0	1	5	2	NM_134951.2	CG2808-RA, transcript variant A (CG2808), mRNA
0	0	1	4	3	NM_165607.1	CG2127-RB, transcript variant B (CG2127), mRNA
0	0	1	4	3	NM_136531.2	CG2127-RA, transcript variant A (CG2127), mRNA
0	0	1	4	2	NM_001043044.1	CG17800-RM, transcript variant M (Dscam), mRNA
0	0	1	4	2	NM_001043026.1	CG17800-RY, transcript variant Y (Dscam), mRNA
0	0	1	4	2	NM_001043052.1	CG17800-RZ, transcript variant Z (Dscam), mRNA
0	0	1	4	2	NM_001043059.1	CG17800-PAO (Dscam), mRNA
0	0	1	3	4	NM_130478.2	CG2995-RA (CG2995), mRNA
0	0	1	3	3	NM_143384.1	CG14529-RA (CG14529), mRNA
0	0	1	2	6	NM_168385.1	CG6718-RD, transcript variant D (CG6718), mRNA
0	0	1	2	6	NM_168384.1	CG6718-RC, transcript variant C (CG6718), mRNA
0	0	1	2	6	NM_165914.1	CG30056-RA (CG30056), mRNA
0	0	1	2	5	NM_132500.2	CG11699-RA (CG11699), mRNA
0	0	1	2	4	NM_140109.1	CG6718-RA, transcript variant A (CG6718), mRNA
0	0	1	2	4	NM_169758.1	CG5407-RA, transcript variant A (Sur-8), mRNA
0	0	1	2	4	NM_142363.4	CG5407-RB, transcript variant B (Sur-8), mRNA
0	0	1	2	4	NM_168383.1	CG6718-RB, transcript variant B (CG6718), mRNA
0	0	1	2	3	NM_139805.1	CG10077-RA, transcript variant A (CG10077), mRNA
0	0	1	2	2	NM_136371.2	CG9403-RA, transcript variant A (jing), mRNA
0	0	1	2	2	NM_206027.1	CG9403-RD, transcript variant D (jing), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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