Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2245
Trapped Gene
Vdac1 (ENSMUSG00000020402)
Vector Insertion
Chr 11: 52199236 - 52200917
Public Clones AL0250 (sanger) CMHD-GT_418H8-3 (cmhd) (cmhd)
Private Clones not available
Severity of mutation (?) Insertion after 83% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000104271 (Chr11:52199085..52199235 +)
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
ENSMUSE00000104271 (Chr11:52199085..52199235 +)
Downstram Exon
ENSMUSE00000461183 (Chr11:52200918..52200975 +)
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 ENSMUSE00000662518 Chr11:52174362..52174654 No primer for this exon
upstream ENSMUSE00000351777 Chr11:52187765..52187870 No primer for this exon
upstream ENSMUSE00000678922 Chr11:52187799..52187870 No primer for this exon
upstream ENSMUSE00000662517 Chr11:52187801..52187870 No primer for this exon
upstream ENSMUSE00000468293 Chr11:52188420..52188469 No primer for this exon
upstream ENSMUSE00000579921 Chr11:52189893..52190045 No primer for this exon
upstream ENSMUSE00000292528 Chr11:52190150..52190202 No primer for this exon
upstream ENSMUSE00000104257 Chr11:52197352..52197579 No primer for this exon
upstream ENSMUSE00000104271 Chr11:52199085..52199235 No primer for this exon

*** Putative Vector Insertion (Chr 11: 52199236 - 52200917) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000461183 Chr11:52200918..52200975 No primer for this exon
downstream ENSMUSE00000381375 Chr11:52201934..52202898 No primer for this exon
downstream ENSMUSE00000662516 Chr11:52201934..52202899 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCGAGAATCACCCATCTCAC Chr11:52199245..52199265 60.47 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCGAGAATCACCCATCTCAC Chr11:52199245..52199265 60.47 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000020402