Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI29107
Trapped Gene
Igf2bp3 (ENSMUSG00000029814)
Vector Insertion
Chr 6: 49084758 - 49084845
Public Clones not available
Private Clones OST8650 (lexicon)
Severity of mutation (?) Insertion after 20% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000292793 (Chr6:49084846..49084897 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGTGGTGGAGAGCTGTGAGC Chr6:49084849..49084868 60.62 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000292793 (Chr6:49084846..49084897 -)
Downstram Exon
ENSMUSE00000292786 (Chr6:49084694..49084757 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGTGGTGGAGAGCTGTGAGC Chr6:49084849..49084868 60.62 60 TACAACTGCCGTTTCCGAAT Chr6:49084707..49084726 60.5 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000473559 Chr6:49164296..49164956 CATTCAAAAAGCCGGACACT Chr6:49164920..49164939 60.11 45
upstream ENSMUSE00000292807 Chr6:49163266..49163326 AGTTGAGCACTCGGTCCCTA Chr6:49163276..49163295 59.87 55
upstream ENSMUSE00000292799 Chr6:49118469..49118517 AAATATCCCGCCCCACTTAC Chr6:49118477..49118496 60.04 50
upstream ENSMUSE00000292793 Chr6:49084846..49084897 AGTGGTGGAGAGCTGTGAGC Chr6:49084849..49084868 60.62 60

*** Putative Vector Insertion (Chr 6: 49084758 - 49084845) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000292786 Chr6:49084694..49084757 TACAACTGCCGTTTCCGAAT Chr6:49084707..49084726 60.5 45
downstream ENSMUSE00000292782 Chr6:49067151..49067432 TTTGTGATGTTGCGAATGGT Chr6:49067144..49067163 59.97 40
downstream ENSMUSE00000193031 Chr6:49058925..49059059 AGAGGTGCCTTCAGGGGTAG Chr6:49058959..49058978 60.64 60
downstream ENSMUSE00000193028 Chr6:49057341..49057463 CCGTGTCTTGCTCGATTTTT Chr6:49057341..49057360 60.25 45
downstream ENSMUSE00000193030 Chr6:49055569..49055704 CTTGGCACACGTCTCAACAC Chr6:49055610..49055629 60.36 55
downstream ENSMUSE00000193029 Chr6:49054173..49054298 AACAGACCCAAGGCATTCAG Chr6:49054227..49054246 60.11 50
downstream ENSMUSE00000193026 Chr6:49044139..49044255 GCGGGAATAAACAGATGCAC Chr6:49044196..49044215 60.48 50
downstream ENSMUSE00000498311 Chr6:49040975..49041049 ATCACCATCCGCACTTTAGC Chr6:49040984..49041003 60.1 50
downstream ENSMUSE00000193027 Chr6:49038429..49038560 AAAGGACGGCACTCTGATGT Chr6:49038443..49038462 59.73 50
downstream ENSMUSE00000193033 Chr6:49037767..49037880 GGGACGACAACTTCAGCACT Chr6:49037815..49037834 60.31 55
downstream ENSMUSE00000388923 Chr6:49035227..49037439 GATCACCCGCACCTACAAGT Chr6:49035857..49035876 60 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTGGAGAGCTGTGAGCAAGG Chr6:49084843..49084863 61.15 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGGAGAGCTGTGAGCAAGG Chr6:49084843..49084863 61.15 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029814