Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI6873
Trapped Gene
Ddx42 (ENSMUSG00000020705)
Vector Insertion
Chr 11: 106078471 - 106085394
Public Clones (sanger) BGA637 (baygenomics) D041B10 (ggtc) D027H03 (ggtc) D030E11 (ggtc)
D041B10 (ggtc) D027H03 (ggtc) PST3925-NR (escells) PST8513-NR (escells)
IST14185G5 (tigm) IST14185E4 (tigm) IST14666B4 (tigm)
Private Clones OST223276 (lexicon) OST189771 (lexicon) OST33418 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000367069 (Chr11:106078240..106078470 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000367069 (Chr11:106078240..106078470 +)
Downstram Exon
ENSMUSE00000360968 (Chr11:106085395..106085632 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000367069 Chr11:106078240..106078470 No primer for this exon

*** Putative Vector Insertion (Chr 11: 106078471 - 106085394) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000360968 Chr11:106085395..106085632 No primer for this exon
downstream ENSMUSE00000385834 Chr11:106086098..106086248 No primer for this exon
downstream ENSMUSE00000328098 Chr11:106090077..106090138 No primer for this exon
downstream ENSMUSE00000328092 Chr11:106091644..106091680 No primer for this exon
downstream ENSMUSE00000328087 Chr11:106092446..106092595 No primer for this exon
downstream ENSMUSE00000380490 Chr11:106094120..106094224 No primer for this exon
downstream ENSMUSE00000327928 Chr11:106096166..106096285 No primer for this exon
downstream ENSMUSE00000327922 Chr11:106096921..106097097 No primer for this exon
downstream ENSMUSE00000327917 Chr11:106098309..106098437 No primer for this exon
downstream ENSMUSE00000327910 Chr11:106099822..106099921 No primer for this exon
downstream ENSMUSE00000327900 Chr11:106100450..106100497 No primer for this exon
downstream ENSMUSE00000327891 Chr11:106101316..106101413 No primer for this exon
downstream ENSMUSE00000327880 Chr11:106102865..106103141 No primer for this exon
downstream ENSMUSE00000108271 Chr11:106104189..106104415 No primer for this exon
downstream ENSMUSE00000108273 Chr11:106106641..106106751 No primer for this exon
downstream ENSMUSE00000108270 Chr11:106108090..106108191 No primer for this exon
downstream ENSMUSE00000108278 Chr11:106108806..106110453 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TCATTTGTTTAATCGCCTTGC Chr11:106081513..106081534 60.09 38.1 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGGACACGAGAGGTAACTGG Chr11:106081460..106081480 59.57 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000020705