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 17149R-1

Symbol Hdm Full Name Histone demethylase

CG No CG17149 Old CG No CG17149

Synonyms Hdm, CG17149, Dmel?LSD1, Dmel/HDM, Dmel/LSD1

Accession No (Link to NCBI) NM_140937.2

Inserted Chr. lll

Insertional Mutation lethal

Phenotype induced by Act5C-GAL4 at 28 degrees lethal

Map Viewer

Reference
[Please submit your publication] Eliazer S, Palacios V, Wang Z, Kollipara RK, Kittler R, Buszczak M.
Lsd1 restricts the number of germline stem cells by regulating multiple targets in escort cells.
PLoS Genet (2014) 10(3) e1004200 [ PubMed ID = 24625679 ] [ RRC reference ]

Eliazer S, Shalaby NA, Buszczak M.
Loss of lysine-specific demethylase 1 nonautonomously causes stem cell tumors in the Drosophila ovary.
Proc Natl Acad Sci U S A (2011) 108(17) 7064-9 [ PubMed ID = 21482791 ] [ RRC reference ]

Comment

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

Primer Seq. 5'

aaggcctacatggccggaccgACCCAGTTCGGAGGCAGTAGC

Primer Seq. 3'

aatctagaggtaccGGCAGGCGAGATTGGAAGACG

Predicted Fragment Size

IR fragment full Seq

0001 ACCCAGTTCG GAGGCAGTAG CTCCAAGATG ACCGAGCCAA TTGAGTATGT GACGCTAATT 
0061 AGCGACGATT CCGATGGTGA GCCCACGCCC AAAAGAAACG TCAATCACCC GCCGTCGGCA 
0121 TTGTCAGCAC CCAATCCTGG TCAGAAACAA AAGCACCCGG ATGAGGACTC AAATGACNGC 
0181 ACCTGCCACC AGCGATGAGC GACGCACAAG TAGGCGCAAT CGGCCAAAAG TGGATTATAG 
0241 TAACAGGCCT AGTGGAAGTG GAGACACCGC CTCCAATGAC AAGTCAGGAT CGGCATCCAT 
0301 GGGACCTAAC AACCAGCAAG CAGANNGTCG CAACCAAAGC CAAACCCGCA AGTCAGAAGC 
0361 CAATGCTACC TCCTCCTCCG TGTCCGGACC CAGTGCCGGA AATTCCAGAC CGTCCCAGAA 
0421 CGGAGATTCC AAGGAcCGGG ATGCCgGCAC GCCCACGGTT TTGTCTGGCC AAGAGGGCGC 
0481 CGTCTTCCAA TCTCGcCTNC C

in silico PCR Fragment

0001 ACCCAGTTCG GAGGCAGTAG CTCCAAGATG ACCGAGCCAA TTGAGTATGT GACGCTAATT 
0061 AGCGACGATT CCGATGGTGA GCCCACGCCC AAAAGAAACG TCAATCACCC GCCGTCGGCA 
0121 TTGTCAGCAC CCAATCCTGG TCAGAAACAA AAGCACCCGG ATGAGGACTC AAATGAC-GC 
0181 ACCTGCCACC AGCGATGAGC GACGCACAAG TAGGCGCAAT CGGCCAAAAG TGGATTATAG 
0241 TAACAGGCCT AGTGGAAGTG GAGACACCGC CTCCAATGAC AAGTCAGGAT CGGCATCCAT 
0301 GGGACCTAAC AACCAGCAAG CAGAGCGTCG CAGCCAAAGC CAAACCCGCA AGTCAGAAGC 
0361 CAATGCTACC TCCTCCTCCG TGTCCGGACC CAGTGCCGGA AATTCCAGAC CGTCCCAGAA 
0421 CGGAGATTCC AAGGACCGGG ATGCCGGCAC GCCCACGGTT TTGTCTGGCC AAGAGGGCGC 
0481 CGTCTTCCAA TCTCGCCTGC C

Assemble Data


17149R-1.IR_full       1   ACCCAGTTCGGAGGCAGTAGCTCCAAGATGACCGAGCCAATTGAGTATGTGACGCTAATT 60
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     1   ACCCAGTTCGGAGGCAGTAGCTCCAAGATGACCGAGCCAATTGAGTATGTGACGCTAATT 60


17149R-1.IR_full       61  AGCGACGATTCCGATGGTGAGCCCACGCCCAAAAGAAACGTCAATCACCCGCCGTCGGCA 120
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     61  AGCGACGATTCCGATGGTGAGCCCACGCCCAAAAGAAACGTCAATCACCCGCCGTCGGCA 120


17149R-1.IR_full       121 TTGTCAGCACCCAATCCTGGTCAGAAACAAAAGCACCCGGATGAGGACTCAAATGACNGC 180
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
17149R-1.in silico     121 TTGTCAGCACCCAATCCTGGTCAGAAACAAAAGCACCCGGATGAGGACTCAAATGAC-GC 180


17149R-1.IR_full       181 ACCTGCCACCAGCGATGAGCGACGCACAAGTAGGCGCAATCGGCCAAAAGTGGATTATAG 240
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     181 ACCTGCCACCAGCGATGAGCGACGCACAAGTAGGCGCAATCGGCCAAAAGTGGATTATAG 240


17149R-1.IR_full       241 TAACAGGCCTAGTGGAAGTGGAGACACCGCCTCCAATGACAAGTCAGGATCGGCATCCAT 300
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     241 TAACAGGCCTAGTGGAAGTGGAGACACCGCCTCCAATGACAAGTCAGGATCGGCATCCAT 300


17149R-1.IR_full       301 GGGACCTAACAACCAGCAAGCAGANNGTCGCAACCAAAGCCAAACCCGCAAGTCAGAAGC 360
                           ||||||||||||||||||||||||  |||||| |||||||||||||||||||||||||||
17149R-1.in silico     301 GGGACCTAACAACCAGCAAGCAGAGCGTCGCAGCCAAAGCCAAACCCGCAAGTCAGAAGC 360


17149R-1.IR_full       361 CAATGCTACCTCCTCCTCCGTGTCCGGACCCAGTGCCGGAAATTCCAGACCGTCCCAGAA 420
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     361 CAATGCTACCTCCTCCTCCGTGTCCGGACCCAGTGCCGGAAATTCCAGACCGTCCCAGAA 420


17149R-1.IR_full       421 CGGAGATTCCAAGGACCGGGATGCCGGCACGCCCACGGTTTTGTCTGGCCAAGAGGGCGC 480
                           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
17149R-1.in silico     421 CGGAGATTCCAAGGACCGGGATGCCGGCACGCCCACGGTTTTGTCTGGCCAAGAGGGCGC 480


17149R-1.IR_full       481 CGTCTTCCAATCTCGCCTNCC 501
                           |||||||||||||||||| ||
17149R-1.in silico     481 CGTCTTCCAATCTCGCCTGCC 501

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_140937.2	CG17149-RA, transcript variant A (CG17149), mRNA
100	482	0	0	0	NM_168835.1	CG17149-RB, transcript variant B (CG17149), mRNA
0	0	4	2	3	NM_132073.1	CG14445-RA (CG14445), mRNA
0	0	3	3	5	NM_140383.1	CG10191-RA (CG10191), mRNA
0	0	2	2	7	NM_079318.2	CG10488-RA, transcript variant A (eyg), mRNA
0	0	2	2	7	NM_001014582.1	CG10488-RB, transcript variant B (eyg), mRNA
0	0	2	2	4	NM_169375.1	CG31299-RB, transcript variant B (nocturnin), mRNA
0	0	2	2	4	NM_169374.1	CG31299-RA, transcript variant A (nocturnin), mRNA
0	0	2	2	4	NM_058145.3	CG2707-RA (fs(1)Ya), mRNA
0	0	1	6	2	NM_135967.1	CG13272-RA (CG13272), mRNA
0	0	1	3	3	NM_135226.2	CG11221-RA (CG11221), mRNA
0	0	1	2	5	NM_130482.2	CG12470-RA (CG12470), mRNA
0	0	1	2	5	NM_057783.2	CG3954-RB, transcript variant B (csw), mRNA
0	0	1	2	5	NM_166928.1	CG3954-RC, transcript variant C (csw), mRNA
0	0	1	2	5	NM_057782.3	CG3954-RA, transcript variant A (csw), mRNA
0	0	1	2	3	NM_141495.2	CG2791-RA (CG2791), mRNA
0	0	1	2	3	NM_130666.2	CG2681-RA (CG2681), mRNA
0	0	0	6	11	NM_167381.1	CG32625-RA (CG32625), mRNA
0	0	0	5	6	NM_057512.3	CG3724-RA (Pgd), mRNA
0	0	0	5	6	NM_079717.2	CG6703-RB, transcript variant B (Caki), mRNA
0	0	0	5	5	NM_169971.1	CG6703-RC, transcript variant C (Caki), mRNA
0	0	0	5	5	NM_169970.1	CG6703-RA, transcript variant A (Caki), mRNA
0	0	0	4	9	NM_132068.1	CG15899-RB (Ca-alpha1T), mRNA
0	0	0	4	4	NM_057946.3	CG2863-RA (Nle), mRNA
0	0	0	4	3	NM_164438.1	CG31936-RA (Gr22e), mRNA
0	0	0	4	2	NM_135917.2	CG18480-RA (CG18480), mRNA
0	0	0	3	8	NM_166257.1	CG5785-RB (thr), mRNA
0	0	0	3	7	NM_132320.2	CG12124-RA (CG12124), mRNA
0	0	0	3	6	NM_169191.2	CG31146-RD (CG31146), mRNA
0	0	0	3	6	NM_057523.3	CG18412-RA (ph-p), mRNA

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