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NIG-RNAi Strains Detail

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

Stock ID

1225R-1

Symbol

RhoGEF3

Full Name

RhoGEF3

CG No

CG1225

Old CG No

CG1225

Synonyms

CG1225, DrhoGEF3, RhoGEF3

Accession No (Link to NCBI)

NM_138183.2

Inserted Chr.

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

semi-lethal

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'

aaggcctacatggccggaccgCAAGTGGCGAAAGTGCAAAGC

Primer Seq. 3'

aatctagaggtaccTGCGGTTGTTGTTGTTGGCGA

Predicted Fragment Size

IR fragment full Seq

0001 CAAGTGGCGA ACAGTGCAAA gCGCNTGATG CAAAGTGCGA AAAGAAGGCA ACAAGTCGAN 
0061 NATATGAACA CAAACANGTG TCCCANGCAA AAATGTGACT GTGAAATCGT CACAGCTATA 
0121 TAGGTATATA GCGCCCAGGA ACCGATCCAT GCTTGTCATG AAGGATCCAC GGAGCATGCG 
0181 AACCTTACGA CGAATGCCAA AACCTGGAAG CAATGAAATG GGAACAACCA GTGACTGCGC 
0241 TGCGAGTTTG TCACAGCAAA TAAAGGCGGT CTCCAGTCCA ACGCTGTCCG AGCCGTGCTT 
0301 AGAGGAGCAG CCACAAAAAG GAACTGAAAG TACGGATGTG GCCAACACAG GCAGCAGCGC 
0361 CGGNAAGTGG AGGCCTAGGC GTATTGCAGA AATTCAAACG CACCTTGAAC AACTTTAACA 
0421 ACAAAAATCA ATTGCACATC TCTCCGCTAT CACCAGCGGC AGTAGGTAAC AATGCCCCAA 
0481 AAACTAAGAC ATCGCCAACA ACAACAANCG CA

in silico PCR Fragment

0001 CAAGTGGCGA A-AGTGCAAA GCGC---A-G CAAAGTGCGA AAAGAAGGCA ACAAGTCGA- 
0061 -ATATGAACA CAAACA---G TCCCA-GCAA AAATGTGACT GTGAAATCGT CACAGCTATA 
0121 TAGGTATATA GCGCCCAGGA ACCGATCCAT GCTTGTCATG AAGGATCCAC GGAGCATGCG 
0181 AACCTTACGA CGAATGCCAA AACCTGGAAG CAATGAAATG GGAACAACCA GTGACTGCGC 
0241 TGCGAGTTTG TCACAGCAAA TAAAGGCGGT CTCCAGTCCA ACGCTGTCCG AGCCGTGCTT 
0301 AGAGGAGCAG CCACAAAAAG GAACTGAAAG TACGGATGTG GCCAACACAG GCAGCAGCGC 
0361 CGG-AAGTGG AGGCCTAGGC GTATTGCAGA AATTCAAACG CACCTTGAAC AACTTTAACA 
0421 ACAAAAATCA ATTGCACATC TCTCCGCTAT CACCAGCGGC AGTAGGTAAC AATGCCCCAA 
0481 AAACTAAGAC ATCGCCAACA ACAACAACCG CA

Assemble Data

<PRE>

1225R-1.IR_full       1   CAAGTGGCGAA<span class="snp"><tt>C</tt></span>AGTGCAAAGCGC<span class="snp"><tt>N</tt></span><span class="snp"><tt>T</tt></span><span class="snp"><tt>G</tt></span>A<span class="snp"><tt>T</tt></span>GCAAAGTGCGAAAAGAAGGCAACAAGTCGA<span class="snp"><tt>N</tt></span> 60
                          |||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>|<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>
1225R-1.in silico     1   CAAGTGGCGAA<span class="snp"><tt>-</tt></span>AGTGCAAAGCGC<span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span>A<span class="snp"><tt>-</tt></span>GCAAAGTGCGAAAAGAAGGCAACAAGTCGA<span class="snp"><tt>-</tt></span> 60


1225R-1.IR_full        61  ATATGAACACAAACA<span class="snp"><tt>N</tt></span><span class="snp"><tt>G</tt></span><span class="snp"><tt>T</tt></span>GTCCCA<span class="snp"><tt>N</tt></span>GCAAAAATGTGACTGTGAAATCGTCACAGCTATA 119
                           |||||||||||||||<span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span><span class="snp"><tt>&nbsp;</tt></span>||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||
1225R-1.in silico      61  ATATGAACACAAACA<span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span><span class="snp"><tt>-</tt></span>GTCCCA<span class="snp"><tt>-</tt></span>GCAAAAATGTGACTGTGAAATCGTCACAGCTATA 119


1225R-1.IR_full       121 TAGGTATATAGCGCCCAGGAACCGATCCATGCTTGTCATGAAGGATCCACGGAGCATGCG 179
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     121 TAGGTATATAGCGCCCAGGAACCGATCCATGCTTGTCATGAAGGATCCACGGAGCATGCG 179


1225R-1.IR_full       181 AACCTTACGACGAATGCCAAAACCTGGAAGCAATGAAATGGGAACAACCAGTGACTGCGC 239
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     181 AACCTTACGACGAATGCCAAAACCTGGAAGCAATGAAATGGGAACAACCAGTGACTGCGC 239


1225R-1.IR_full       241 TGCGAGTTTGTCACAGCAAATAAAGGCGGTCTCCAGTCCAACGCTGTCCGAGCCGTGCTT 299
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     241 TGCGAGTTTGTCACAGCAAATAAAGGCGGTCTCCAGTCCAACGCTGTCCGAGCCGTGCTT 299


1225R-1.IR_full       301 AGAGGAGCAGCCACAAAAAGGAACTGAAAGTACGGATGTGGCCAACACAGGCAGCAGCGC 359
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     301 AGAGGAGCAGCCACAAAAAGGAACTGAAAGTACGGATGTGGCCAACACAGGCAGCAGCGC 359


1225R-1.IR_full       361 CGG<span class="snp"><tt>N</tt></span>AAGTGGAGGCCTAGGCGTATTGCAGAAATTCAAACGCACCTTGAACAACTTTAACA 419
                          |||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     361 CGG<span class="snp"><tt>-</tt></span>AAGTGGAGGCCTAGGCGTATTGCAGAAATTCAAACGCACCTTGAACAACTTTAACA 419


1225R-1.IR_full       421 ACAAAAATCAATTGCACATCTCTCCGCTATCACCAGCGGCAGTAGGTAACAATGCCCCAA 479
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1225R-1.in silico     421 ACAAAAATCAATTGCACATCTCTCCGCTATCACCAGCGGCAGTAGGTAACAATGCCCCAA 479


1225R-1.IR_full       481 AAACTAAGACATCGCCAACAACAACAA<span class="snp"><tt>N</tt></span>CGCA 511
                          |||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||
1225R-1.in silico     481 AAACTAAGACATCGCCAACAACAACAA<span class="snp"><tt>C</tt></span>CGCA 511

</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_138183.2	CG1225-RA, transcript variant A (RhoGEF3), mRNA
50.62	244	1	1	7	NM_167825.1	CG1225-RC, transcript variant C (RhoGEF3), mRNA
40.66	196	2	3	7	NM_167823.1	CG1225-RB, transcript variant B (RhoGEF3), mRNA
39.41	190	2	2	8	NM_167824.1	CG1225-RE, transcript variant E (RhoGEF3), mRNA
0.41	2	3	3	7	NM_169823.1	CG7693-RB, transcript variant B (fray), mRNA
0.41	2	3	3	7	NM_057960.3	CG7693-RA, transcript variant A (fray), mRNA
0	0	4	5	4	NM_164788.1	CG31605-RH, transcript variant H (Bsg), mRNA
0	0	4	5	4	NM_164787.1	CG31605-RF, transcript variant F (Bsg), mRNA
0	0	4	5	4	NM_164785.1	CG31605-RD, transcript variant D (Bsg), mRNA
0	0	4	5	4	NM_164784.1	CG31605-RC, transcript variant C (Bsg), mRNA
0	0	4	5	3	NM_164786.1	CG31605-RE, transcript variant E (Bsg), mRNA
0	0	4	5	3	NM_164789.1	CG31605-RI, transcript variant I (Bsg), mRNA
0	0	4	5	3	NM_164783.1	CG31605-RB, transcript variant B (Bsg), mRNA
0	0	4	5	3	NM_164782.1	CG31605-RA, transcript variant A (Bsg), mRNA
0	0	2	4	3	NM_136081.2	CG10641-RA (CG10641), mRNA
0	0	2	3	6	NM_132627.1	CG4346-RA (rad), mRNA
0	0	2	3	3	NM_168063.2	CG14998-RD, transcript variant D (CG14998), mRNA
0	0	2	2	2	NM_079107.2	CG11173-RA (usnp), mRNA
0	0	2	1	3	NM_167657.1	CG12233-RB, transcript variant B (l(1)G0156), mRNA
0	0	2	1	3	NM_133160.1	CG12233-RA, transcript variant A (l(1)G0156), mRNA
0	0	1	6	11	NM_134301.3	CG1759-RB, transcript variant B (cad), mRNA
0	0	1	6	11	NM_057606.4	CG1759-RA, transcript variant A (cad), mRNA
0	0	1	5	3	NM_143606.1	CG15566-RA (CG15566), mRNA
0	0	1	4	18	NM_080020.3	CG11491-RE, transcript variant E (br), mRNA
0	0	1	4	8	NM_001038712.1	CG33978-RA (CG33978), mRNA
0	0	1	4	7	NM_078509.2	CG3929-RA (dx), mRNA
0	0	1	4	4	NM_137534.1	CG15082-RA (CG15082), mRNA
0	0	1	3	5	NM_165832.1	CG30026-RA (CG30026), mRNA
0	0	1	3	2	NM_135644.2	CG4713-RA (CG4713), mRNA
0	0	1	2	31	NM_078592.2	CG11172-RA (NFAT), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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