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

9433R-2

Symbol

Xpd

Full Name

Xeroderma pigmentosum D

CG No

CG9433

Old CG No

CG9433

Synonyms

XPD, XPD/ERCC2, CG9433, DmXPD, DhXPD, DhR3, Xpd

Accession No (Link to NCBI)

NM_166429.1

Inserted Chr.

Insertional Mutation

Phenotype induced by Act5C-GAL4 at 28 degrees

lethal

Map Viewer

Reference
[Please submit your publication]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgATGCTGGAACTTAAGCGTAGC

Primer Seq. 3'

aatctagaggtaccAGTTGCGCGACCGACCGTATT

Predicted Fragment Size

IR fragment full Seq

0001 ATGCTGGAAC TTAAGCGTAG CCTGGACGCC AAGGGCCACT GCCTGTTGGA GATGCCCTCG 
0061 GGAACGGGCA AGACGGCCAC GCTGCTCTCC CTGATCGTTG CCTACATGGT GGAGCATCCG 
0121 GAAACGGTGC GCAAGCTCAT CTACTGCTCG CGTACTGTTC CGGAGATCGA GAAGGTGATC 
0181 GCCGAGCTGC AGAACCTGAT GGTTTACTAC GAGCGCCACT GCCCCAATCC ACCACCCTTC 
0241 ACCGGTCTGG TGCTCAGCTC TAGGAAGAAC ATGTGCATCC ATCCGGAGGT CAGTAAGGAG 
0301 CGCGAGGGCA AGGCCGTGGA CGGTAAATGT TACGGACTCA CTGCCAGCTA CATTCGCGAA 
0361 CGGCACGANG ATGGACACCG AGACGCCCAT TTGCCAGTAC TTTGAGGGAT TTAGCCTGGA 
0421 AGGCAAGGAG TCCACATTGC CGGTCGGCGT CTACAGCATC GATGATCTTA AGGAATACGG 
0481 TCGGTCGCGC AACT

in silico PCR Fragment

0001 ATGCTGGAAC TTAAGCGTAG CCTGGACGCC AAGGGCCACT GCCTGTTGGA GATGCCCTCG 
0061 GGAACGGGCA AGACGGCCAC GCTGCTCTCC CTGATCGTTG CCTACATGGT GGAGCATCCG 
0121 GAAACGGTGC GCAAGCTCAT CTACTGCTCG CGTACTGTTC CGGAGATCGA GAAAGTGATC 
0181 GCCGAGCTGC AGAACCTGAT GGTTTACTAC GAGCGCCACT GCCCCAATCC ACCACCCTTC 
0241 ACCGGTCTGG TGCTCAGCTC TAGGAAGAAC ATGTGCATCC ATCCGGAGGT CAGTAAGGAG 
0301 CGCGAGGGCA AGGCCGTGGA CGGTAAATGT TACGGACTCA CTGCCAGCTA CATTCGCGAA 
0361 CGGCACGA-G ATGGACACCG AGACGCCCAT TTGCCAGTAC TTTGAGGGAT TTAGCCTGGA 
0421 AGGCAAGGAG TCCACATTGC CGGTCGGCGT CTACAGCATC GATGATCTTA AGGAATACGG 
0481 TCGGTCGCGC AACT

Assemble Data

<PRE>

9433R-2.IR_full       1   ATGCTGGAACTTAAGCGTAGCCTGGACGCCAAGGGCCACTGCCTGTTGGAGATGCCCTCG 60
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     1   ATGCTGGAACTTAAGCGTAGCCTGGACGCCAAGGGCCACTGCCTGTTGGAGATGCCCTCG 60


9433R-2.IR_full       61  GGAACGGGCAAGACGGCCACGCTGCTCTCCCTGATCGTTGCCTACATGGTGGAGCATCCG 120
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     61  GGAACGGGCAAGACGGCCACGCTGCTCTCCCTGATCGTTGCCTACATGGTGGAGCATCCG 120


9433R-2.IR_full       121 GAAACGGTGCGCAAGCTCATCTACTGCTCGCGTACTGTTCCGGAGATCGAGAA<span class="snp"><tt>G</tt></span>GTGATC 180
                          |||||||||||||||||||||||||||||||||||||||||||||||||||||<span class="snp"><tt>&nbsp;</tt></span>||||||
9433R-2.in silico     121 GAAACGGTGCGCAAGCTCATCTACTGCTCGCGTACTGTTCCGGAGATCGAGAA<span class="snp"><tt>A</tt></span>GTGATC 180


9433R-2.IR_full       181 GCCGAGCTGCAGAACCTGATGGTTTACTACGAGCGCCACTGCCCCAATCCACCACCCTTC 240
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     181 GCCGAGCTGCAGAACCTGATGGTTTACTACGAGCGCCACTGCCCCAATCCACCACCCTTC 240


9433R-2.IR_full       241 ACCGGTCTGGTGCTCAGCTCTAGGAAGAACATGTGCATCCATCCGGAGGTCAGTAAGGAG 300
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     241 ACCGGTCTGGTGCTCAGCTCTAGGAAGAACATGTGCATCCATCCGGAGGTCAGTAAGGAG 300


9433R-2.IR_full       301 CGCGAGGGCAAGGCCGTGGACGGTAAATGTTACGGACTCACTGCCAGCTACATTCGCGAA 360
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     301 CGCGAGGGCAAGGCCGTGGACGGTAAATGTTACGGACTCACTGCCAGCTACATTCGCGAA 360


9433R-2.IR_full       361 CGGCACGA<span class="snp"><tt>N</tt></span>GATGGACACCGAGACGCCCATTTGCCAGTACTTTGAGGGATTTAGCCTGGA 420
                          ||||||||<span class="snp"><tt>&nbsp;</tt></span>|||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     361 CGGCACGA<span class="snp"><tt>-</tt></span>GATGGACACCGAGACGCCCATTTGCCAGTACTTTGAGGGATTTAGCCTGGA 420


9433R-2.IR_full       421 AGGCAAGGAGTCCACATTGCCGGTCGGCGTCTACAGCATCGATGATCTTAAGGAATACGG 480
                          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
9433R-2.in silico     421 AGGCAAGGAGTCCACATTGCCGGTCGGCGTCTACAGCATCGATGATCTTAAGGAATACGG 480


9433R-2.IR_full       481 TCGGTCGCGCAACT 494
                          ||||||||||||||
9433R-2.in silico     481 TCGGTCGCGCAACT 494

</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	475	0	0	3	NM_166429.1	CG9433-RA, transcript variant A (Xpd), mRNA
100	475	0	0	3	NM_057830.3	CG9433-RB, transcript variant B (Xpd), mRNA
0	0	4	3	3	NM_001031986.1	CG33719-RB, transcript variant B (Pif1A), mRNA
0	0	2	3	9	NM_132034.1	CG3108-RA (CG3108), mRNA
0	0	2	3	5	NM_134538.1	CG1504-RA (CG1504), mRNA
0	0	2	3	3	NM_166951.1	CG2714-RB, transcript variant B (crm), mRNA
0	0	2	3	3	NM_057757.3	CG2714-RA, transcript variant A (crm), mRNA
0	0	2	3	3	NM_001038966.1	CG33967-RA (CG33967), mRNA
0	0	2	3	2	NM_132991.1	CG12432-RA (CG12432), mRNA
0	0	1	4	4	NM_166242.1	CG10936-RB, transcript variant B (CG10936), mRNA
0	0	1	4	4	NM_137395.1	CG10936-RA, transcript variant A (CG10936), mRNA
0	0	1	4	3	NM_176240.1	CG33152-RA (hbn), mRNA
0	0	1	4	3	NM_137367.2	CG18467-RA (CG18467), mRNA
0	0	1	4	2	NM_001042886.1	CG34109-RB (CG34109), mRNA
0	0	1	3	10	NM_132026.1	CG4078-RA (CG4078), mRNA
0	0	1	3	7	NM_141883.1	CG3397-RA (CG3397), mRNA
0	0	1	3	7	NM_141882.1	CG12224-RA (CG12224), mRNA
0	0	1	2	4	NM_133099.1	CG7058-RA (CG7058), mRNA
0	0	1	2	4	NM_166639.1	CG3725-RH, transcript variant H (Ca-P60A), mRNA
0	0	1	2	3	NM_136553.2	CG8639-RA (Cirl), mRNA
0	0	1	2	2	NM_001038984.1	CG12877-RC, transcript variant C (CG12877), mRNA
0	0	1	2	2	NM_143327.2	CG12877-RA, transcript variant A (CG12877), mRNA
0	0	1	2	2	NM_170355.2	CG12877-RB, transcript variant B (CG12877), mRNA
0	0	0	14	696	NM_001015110.1	CG40323-PB.3 (CG40323), mRNA
0	0	0	5	8	NM_079776.2	CG6120-RA (Tsp96F), mRNA
0	0	0	5	6	NM_079608.2	CG6148-RB, transcript variant B (Past1), mRNA
0	0	0	5	6	NM_169478.1	CG6148-RA, transcript variant A (Past1), mRNA
0	0	0	5	5	NM_132517.1	CG15221-RA (CG15221), mRNA
0	0	0	5	4	NM_057247.3	CG9075-RC, transcript variant C (eIF-4a), mRNA
0	0	0	5	4	NM_164669.1	CG9075-RB, transcript variant B (eIF-4a), mRNA

Pathways (updated: 2024/04/26)

KEGG Pathway

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