Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI3311
Trapped Gene
Dennd2c (ENSMUSG00000007379)
Vector Insertion
Chr 3: 102961745 - 102965470
Public Clones AD0315 (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 82% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000173620 (Chr3:102961567..102961744 +)
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
ENSMUSE00000173620 (Chr3:102961567..102961744 +)
Downstram Exon
ENSMUSE00000173614 (Chr3:102965471..102965512 +)
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 ENSMUSE00000476993 Chr3:102931479..102931573 No primer for this exon
upstream ENSMUSE00000503383 Chr3:102935276..102936254 No primer for this exon
upstream ENSMUSE00000479269 Chr3:102937138..102937268 No primer for this exon
upstream ENSMUSE00000480665 Chr3:102937662..102937774 No primer for this exon
upstream ENSMUSE00000317751 Chr3:102941066..102941236 No primer for this exon
upstream ENSMUSE00000436887 Chr3:102944982..102945078 No primer for this exon
upstream ENSMUSE00000317738 Chr3:102950435..102950479 No primer for this exon
upstream ENSMUSE00000317731 Chr3:102952964..102953145 No primer for this exon
upstream ENSMUSE00000173618 Chr3:102956216..102956325 No primer for this exon
upstream ENSMUSE00000173616 Chr3:102957560..102957629 No primer for this exon
upstream ENSMUSE00000173615 Chr3:102958411..102958488 No primer for this exon
upstream ENSMUSE00000565800 Chr3:102959963..102960103 No primer for this exon
upstream ENSMUSE00000173619 Chr3:102960725..102960873 No primer for this exon
upstream ENSMUSE00000173620 Chr3:102961567..102961744 No primer for this exon

*** Putative Vector Insertion (Chr 3: 102961745 - 102965470) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000173614 Chr3:102965471..102965512 No primer for this exon
downstream ENSMUSE00000173612 Chr3:102966914..102967019 No primer for this exon
downstream ENSMUSE00000317680 Chr3:102968931..102969167 No primer for this exon
downstream ENSMUSE00000412036 Chr3:102970336..102970422 No primer for this exon
downstream ENSMUSE00000565798 Chr3:102971694..102973654 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TTGTGCCTATGGGGAACACT Chr3:102961761..102961781 60.38 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGTGCCTATGGGGAACACT Chr3:102961761..102961781 60.38 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000007379