Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2934
Trapped Gene
Ptbp2 (ENSMUSG00000028134)
Vector Insertion
Chr 3: 119464697 - 119484421
Public Clones AD0212 (sanger) AD0210 (sanger) (sanger) RRU584 (baygenomics) DTM017 (baygenomics)
Private Clones OST469201 (lexicon) OST418618 (lexicon) OST328726 (lexicon) OST316221 (lexicon)
OST184554 (lexicon) OST182576 (lexicon) OST168312 (lexicon) OST134490 (lexicon)
OST88786 (lexicon) OST53066 (lexicon) OST52641 (lexicon) OST38676 (lexicon)
Severity of mutation (?) Insertion after 3% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000267487 (Chr3:119484422..119484452 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTCACTGAGGTTGCTGTTGG Chr3:119484429..119484448 59.31 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000267487 (Chr3:119484422..119484452 -)
Downstram Exon
ENSMUSE00000176640 (Chr3:119464621..119464696 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTCACTGAGGTTGCTGTTGG Chr3:119484429..119484448 59.31 55 ATTAGAGTTGGGGCTGCTGA Chr3:119464621..119464640 59.84 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000670024 Chr3:119486120..119486176 No primer for this exon
upstream ENSMUSE00000267487 Chr3:119484422..119484452 GTCACTGAGGTTGCTGTTGG Chr3:119484429..119484448 59.31 55

*** Putative Vector Insertion (Chr 3: 119464697 - 119484421) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000176640 Chr3:119464621..119464696 ATTAGAGTTGGGGCTGCTGA Chr3:119464621..119464640 59.84 50
downstream ENSMUSE00000176627 Chr3:119455862..119456034 GGAGCCCCATCCATTTTATC Chr3:119455958..119455977 60.48 50
downstream ENSMUSE00000176622 Chr3:119454782..119454925 GTTGCCAGTTCCAAAAATGC Chr3:119454884..119454903 60.49 45
downstream ENSMUSE00000176631 Chr3:119450708..119450872 GAGTCACCGCACTCTCACTG Chr3:119450760..119450779 59.6 60
downstream ENSMUSE00000176638 Chr3:119450510..119450620 GCGTTTACCGGATCACCATA Chr3:119450504..119450523 60.72 50
downstream ENSMUSE00000176624 Chr3:119443233..119443428 CTCCAGATGGCAGATCAGGT Chr3:119443274..119443293 60.22 55
downstream ENSMUSE00000176636 Chr3:119428984..119429123 TGTATTGCCACCAGCTGAGA Chr3:119428992..119429011 60.41 50
downstream ENSMUSE00000176642 Chr3:119427530..119427563 AGACTTTGGGGCGTAACCAT Chr3:119427522..119427541 60.74 50
downstream ENSMUSE00000176634 Chr3:119427012..119427104 CGCTGCACATCTCCATAAAC Chr3:119427061..119427080 59.3 50
downstream ENSMUSE00000176632 Chr3:119423707..119423923 TTAAAACGGTGCAGTGGTGA Chr3:119423754..119423773 60.15 45
downstream ENSMUSE00000176644 Chr3:119423525..119423602 GGCAAACAGAGTTCGCAGAT Chr3:119423541..119423560 60.41 50
downstream ENSMUSE00000636243 Chr3:119421918..119423378 ACGATGTGCCCTAAACAACC Chr3:119422895..119422914 59.86 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AACTAATCGCCTTGCAGCAC Chr3:119484353..119484373 60.42 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGTCGTGACTGGGAAAACC Chr3:119472354..119472374 60.93 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ATACCAATAATCGCCTTGCAG Chr3:119484388..119484409 59.11 42.86 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 ATTAGGCGTGACTGGGAAAA Chr3:119481388..119481408 59.57 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028134