Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI4530
Trapped Gene
Bat1a (ENSMUSG00000019432)
Vector Insertion
Chr 17: 35386015 - 35388191
Public Clones AX0149 (sanger)
Private Clones OST36699 (lexicon)
Severity of mutation (?) Insertion after 57% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000544600 (Chr17:35385896..35386014 +)
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
ENSMUSE00000544600 (Chr17:35385896..35386014 +)
Downstram Exon
ENSMUSE00000142006 (Chr17:35388192..35388323 +)
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 ENSMUSE00000458344 Chr17:35378759..35378797 No primer for this exon
upstream ENSMUSE00000582651 Chr17:35378815..35380395 No primer for this exon
upstream ENSMUSE00000544607 Chr17:35380058..35380395 No primer for this exon
upstream ENSMUSE00000142007 Chr17:35381081..35381208 No primer for this exon
upstream ENSMUSE00000142000 Chr17:35381401..35381493 No primer for this exon
upstream ENSMUSE00000141998 Chr17:35383882..35384065 No primer for this exon
upstream ENSMUSE00000544600 Chr17:35385896..35386014 No primer for this exon

*** Putative Vector Insertion (Chr 17: 35386015 - 35388191) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000142006 Chr17:35388192..35388323 No primer for this exon
downstream ENSMUSE00000142002 Chr17:35389692..35389801 No primer for this exon
downstream ENSMUSE00000544596 Chr17:35389909..35390053 No primer for this exon
downstream ENSMUSE00000544595 Chr17:35390152..35390299 No primer for this exon
downstream ENSMUSE00000365269 Chr17:35390418..35390625 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGCAAAGAGATCCGCCCAGT Chr17:35385974..35385994 63.47 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGCAAAGAGATCCGCCCAGT Chr17:35385974..35385994 63.47 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000019432