Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI17284
Trapped Gene
Cdc37l1 (ENSMUSG00000024780)
Vector Insertion
Chr 19: 29082186 - 29086378
Public Clones (sanger) (ggtc) CMHD-GT_426H2-3 (cmhd)
Private Clones OST445948 (lexicon) OST430973 (lexicon) OST425822 (lexicon) OST330169 (lexicon)
OST290783 (lexicon) OST284747 (lexicon) OST176808 (lexicon) OST176712 (lexicon)
OST155058 (lexicon) OST151118 (lexicon) OST135937 (lexicon) OST111587 (lexicon)
OST100146 (lexicon)
Severity of mutation (?) Insertion after 74% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000144918 (Chr19:29082063..29082185 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGGCGCTCTAATGGAACAGA Chr19:29082065..29082084 59.98 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000144918 (Chr19:29082063..29082185 +)
Downstram Exon
ENSMUSE00000489299 (Chr19:29086379..29086543 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGGCGCTCTAATGGAACAGA Chr19:29082065..29082084 59.98 50 CAGAATGGGGGACATGATTC Chr19:29086508..29086527 60.13 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000408401 Chr19:29064984..29065159 CGTCCCACTACTCTCCGGTA Chr19:29065122..29065141 60.13 60
upstream ENSMUSE00000144925 Chr19:29069531..29069812 GGAACATGGATGCCATTAGC Chr19:29069775..29069794 60.3 50
upstream ENSMUSE00000144926 Chr19:29073751..29073841 No primer for this exon
upstream ENSMUSE00000144922 Chr19:29081462..29081577 ACCACCCACACCTCGTATGT Chr19:29081504..29081523 60.16 55
upstream ENSMUSE00000144918 Chr19:29082063..29082185 AGGCGCTCTAATGGAACAGA Chr19:29082065..29082084 59.98 50

*** Putative Vector Insertion (Chr 19: 29082186 - 29086378) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000489299 Chr19:29086379..29086543 CAGAATGGGGGACATGATTC Chr19:29086508..29086527 60.13 50
downstream ENSMUSE00000444339 Chr19:29090496..29092059 GTAGGTCACCACTGCGGATT Chr19:29091097..29091116 60 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TTGGGCAAAGCTGAGCTAAT Chr19:29082221..29082241 59.98 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATGTGGATCCAAGAGGCTGT Chr19:29082140..29082160 59.53 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000024780