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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

7540R-1

Symbol

Full Name

CG No

CG7540

Old CG No

CG7540

Synonyms

dM6a, CG7540, M6

Accession No (Link to NCBI)

NM_141066.1

Inserted Chr.

lll

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

lethal

Map Viewer

Reference
[Please submit your publication]

Zappia MP, Brocco MA, Billi SC, Frasch AC, Ceriani MF.<br> M6 membrane protein plays an essential role in Drosophila oogenesis.<br> PLoS One (2011) 6(5) e19715 [ PubMed ID = 21603606 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgAGATCCTGCTCGAGACGAACT

Primer Seq. 3'

aatctagaggtaccGTTTAGCAGGTAGGTTATCCC

Predicted Fragment Size

IR fragment full Seq

0001 AGATCCTGCT CGAGACGAAC TTTGAGGACG ACGGCGGAGT CCTGACGCGC GCCTACAACG 
0061 GAAATCCGTA TAACCCGACC ATCCAGAACC GTCGGCGCAA CTCGTACCGC TCGGATCACT 
0121 CCTTGGACAG GTACACGGAG CGCGGAGGCG ANAGGAGNAA TGCTGCCAAT CCTGCATGGC 
0181 GCGTATTCCC TACGCCACCC TGATAGCCAC TCTGATGTGT CTCCTGGGAG TAGGAATCTT 
0241 CTGCTTCACC ATGTACCGAG GAGCCTCTCT CACCGTTATA ATGGTTGACC AGGTTTTCCA 
0301 CCTACGCCTG ATATGGATCG AAGCTGTGCA AATGATTTTC GTAATAATTG GAGCGGGCAT 
0361 GGCCGCCCTC GGATTTATGA TCCTGTTCGT CGGATTTCTG GCCACCGGAG CCACCAGATA 
0421 CAAGGTTTAC CGGGCGTGCG CGGTCGCGAG TGGGTGGAGC GAATCTCGTG CGCCGTCCTT 
0481 ATGGGGATAA CCTACCTGCT AAAC

in silico PCR Fragment

0001 AGATCCTGCT CGAGACGAAC TTTGAGGACG ACGGCGGAGT CCTGACGCGC GCCTACAACG 
0061 GAAATCCGTA TAACCCGACC ATCCAGAACC GTCGGCGCAA CTCGTACCGC TCGGATCACT 
0121 CCTTGGACAG GTACACGGAG CGCGGAGGCG A-AGGAG-AA TGCTGCCAAT CCTGCATGGC 
0181 GCGTATTCCC TACGCCACCC TGATAGCCAC TCTGATGTGT CTCCTGGGAG TAGGAATCTT 
0241 CTGCTTCACC ATGTACCGAG GAGCCTCTCT CACCGTTATA ATGGTTGACC AGGTTTTCCA 
0301 CCTACGCCTG ATATGGATCG AAGCTGTGCA AATGATTTTC GTAATAATTG GAGCGGGCAT 
0361 GGCCGCCCTC GGATTTATGA TCCTGTTCGT CGGATTTCTG GCCACCGGAG CCACCAGATA 
0421 CAAGGTTTAC CGGGCGTG-G CGGTCGCGAG TGGGTGG-GC GAATCTCGTG CGCCGTCCTT 
0481 ATGGGGATAA CCTACCTGCT AAAC

Assemble Data

<PRE>

7540R-1.IR_full       1   AGATCCTGCTCGAGACGAACTTTGAGGACGACGGCGGAGTCCTGACGCGCGCCTACAACG 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     1   AGATCCTGCTCGAGACGAACTTTGAGGACGACGGCGGAGTCCTGACGCGCGCCTACAACG 60


7540R-1.IR_full       61  GAAATCCGTATAACCCGACCATCCAGAACCGTCGGCGCAACTCGTACCGCTCGGATCACT 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     61  GAAATCCGTATAACCCGACCATCCAGAACCGTCGGCGCAACTCGTACCGCTCGGATCACT 120


7540R-1.IR_full       121 CCTTGGACAGGTACACGGAGCGCGGAGGCGA<span class="snp"><tt>N</tt></span>AGGAG<span class="snp"><tt>N</tt></span>AATGCTGCCAATCCTGCATGGC 180
                          |||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||
7540R-1.in silico     121 CCTTGGACAGGTACACGGAGCGCGGAGGCGA<span class="snp"><tt>-</tt></span>AGGAG<span class="snp"><tt>-</tt></span>AATGCTGCCAATCCTGCATGGC 180


7540R-1.IR_full       181 GCGTATTCCCTACGCCACCCTGATAGCCACTCTGATGTGTCTCCTGGGAGTAGGAATCTT 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     181 GCGTATTCCCTACGCCACCCTGATAGCCACTCTGATGTGTCTCCTGGGAGTAGGAATCTT 240


7540R-1.IR_full       241 CTGCTTCACCATGTACCGAGGAGCCTCTCTCACCGTTATAATGGTTGACCAGGTTTTCCA 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     241 CTGCTTCACCATGTACCGAGGAGCCTCTCTCACCGTTATAATGGTTGACCAGGTTTTCCA 300


7540R-1.IR_full       301 CCTACGCCTGATATGGATCGAAGCTGTGCAAATGATTTTCGTAATAATTGGAGCGGGCAT 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     301 CCTACGCCTGATATGGATCGAAGCTGTGCAAATGATTTTCGTAATAATTGGAGCGGGCAT 360


7540R-1.IR_full       361 GGCCGCCCTCGGATTTATGATCCTGTTCGTCGGATTTCTGGCCACCGGAGCCACCAGATA 420
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
7540R-1.in silico     361 GGCCGCCCTCGGATTTATGATCCTGTTCGTCGGATTTCTGGCCACCGGAGCCACCAGATA 420


7540R-1.IR_full       421 CAAGGTTTACCGGGCGTG<span class="snp"><tt>C</tt></span>GCGGTCGCGAGTGGGTGG<span class="snp"><tt>A</tt></span>GCGAATCTCGTGCGCCGTCCTT 480
                          ||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||||||||||||||||||
7540R-1.in silico     421 CAAGGTTTACCGGGCGTG<span class="snp"><tt>-</tt></span>GCGGTCGCGAGTGGGTGG<span class="snp"><tt>-</tt></span>GCGAATCTCGTGCGCCGTCCTT 480


7540R-1.IR_full       481 ATGGGGATAACCTACCTGCTAAAC 504
                          ||||||||||||||||||||||||
7540R-1.in silico     481 ATGGGGATAACCTACCTGCTAAAC 504

</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_141066.1	CG7540-RA, transcript variant A (M6), mRNA
100	482	0	0	0	NM_168911.1	CG7540-RB, transcript variant B (M6), mRNA
0	0	5	4	3	NM_139775.1	CG13296-RA (CG13296), mRNA
0	0	3	5	3	NM_136636.3	CG13739-RA (CG13739), mRNA
0	0	3	2	3	NM_137189.2	CG8166-RA (unc-5), mRNA
0	0	3	2	3	NM_141401.1	CG2330-RA (CG2330), mRNA
0	0	1	3	6	NM_139629.1	CG11582-RA (CG11582), mRNA
0	0	1	3	2	NM_167940.1	CG32305-RA (CG32305), mRNA
0	0	1	3	2	NM_057740.3	CG1912-RA (Gycalpha99B), mRNA
0	0	1	2	6	NM_134764.2	CG31935-RA (CG31935), mRNA
0	0	1	2	4	NM_143422.1	CG11898-RA (CG11898), mRNA
0	0	1	2	3	NM_132119.1	CG14439-RA (CG14439), mRNA
0	0	1	2	2	NM_134656.2	CG3709-RA (CG3709), mRNA
0	0	1	2	2	NM_176013.1	CG33114-RA (Gyc32E), mRNA
0	0	0	12	35	NM_168104.1	CG32237-RA (CG32237), mRNA
0	0	0	5	4	NM_058041.2	CG12467-RA (CG12467), mRNA
0	0	0	4	6	NM_132867.1	CG9170-RA, transcript variant A (CG9170), mRNA
0	0	0	4	6	NM_206753.1	CG9170-RB, transcript variant B (CG9170), mRNA
0	0	0	4	4	NM_137313.2	CG15920-RA, transcript variant A (resilin), mRNA
0	0	0	4	4	NM_206138.1	CG15920-RB, transcript variant B (resilin), mRNA
0	0	0	4	3	NM_166655.1	CG3195-RB, transcript variant B (RpL12), mRNA
0	0	0	4	3	NM_080080.2	CG3195-RA, transcript variant A (RpL12), mRNA
0	0	0	4	3	NM_135457.1	CG4382-RA (CG4382), mRNA
0	0	0	4	3	NM_166656.1	CG3195-RC, transcript variant C (RpL12), mRNA
0	0	0	3	22	NM_175960.3	CG33196-RB (dp), mRNA
0	0	0	3	11	NM_170016.1	CG5374-RB, transcript variant B (T-cp1), mRNA
0	0	0	3	11	NM_079726.3	CG5374-RA, transcript variant A (T-cp1), mRNA
0	0	0	3	10	NM_176244.1	CG9696-RE, transcript variant E (dom), mRNA
0	0	0	3	10	NM_166446.1	CG9696-RD, transcript variant D (dom), mRNA
0	0	0	3	10	NM_080094.2	CG9696-RA, transcript variant A (dom), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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