Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13349
Trapped Gene
Aven (ENSMUSG00000003604)
Vector Insertion
Chr 2: 112468002 - 112469896
Public Clones CMHD-GT_329D5-3 (cmhd)
Private Clones OST364584 (lexicon)
Severity of mutation (?) Insertion after 56% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000166338 (Chr2:112467906..112468001 +)
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
ENSMUSE00000166338 (Chr2:112467906..112468001 +)
Downstram Exon
ENSMUSE00000166339 (Chr2:112469897..112470233 +)
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 ENSMUSE00000362311 Chr2:112333121..112333378 No primer for this exon
upstream ENSMUSE00000311948 Chr2:112354607..112354784 No primer for this exon
upstream ENSMUSE00000686189 Chr2:112399911..112399944 No primer for this exon
upstream ENSMUSE00000166341 Chr2:112465312..112465382 No primer for this exon
upstream ENSMUSE00000166338 Chr2:112467906..112468001 No primer for this exon

*** Putative Vector Insertion (Chr 2: 112468002 - 112469896) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000166339 Chr2:112469897..112470233 No primer for this exon
downstream ENSMUSE00000642572 Chr2:112470936..112471227 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ACCAGATAATCGCCTTGCAG Chr2:112468047..112468067 60.24 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGTCCGGCTTAATGTTGCT Chr2:112467968..112467988 60.27 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000003604