Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI31236
Trapped Gene
Pde11a (ENSMUSG00000075270)
Vector Insertion
Chr 2: 76053374 - 76129381
Public Clones IST13578C7 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000689844 (Chr2:76129222..76129380 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCCCAGGCGATAAATAAGGT Chr2:76129259..76129278 60.3 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000689844 (Chr2:76129222..76129380 -)
Downstram Exon
ENSMUSE00000689843 (Chr2:76053375..76053464 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCCCAGGCGATAAATAAGGT Chr2:76129259..76129278 60.3 50 CGATTCCACAGAACGGAAGA Chr2:76053409..76053428 61.18 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000714318 Chr2:76175753..76176710 GGCAAGAAGACGTTGGTCTC Chr2:76175901..76175920 59.85 55
upstream ENSMUSE00000718422 Chr2:76175753..76176710 GGCAAGAAGACGTTGGTCTC Chr2:76175901..76175920 59.85 55
upstream ENSMUSE00000644389 Chr2:76129222..76129380 GCCCAGGCGATAAATAAGGT Chr2:76129259..76129278 60.3 50
upstream ENSMUSE00000689844 Chr2:76129222..76129380 GCCCAGGCGATAAATAAGGT Chr2:76129259..76129278 60.3 50
upstream ENSMUSE00000689843 Chr2:76053375..76053464 TGGAATCGCCATATCTAATGC Chr2:76053418..76053438 59.91 42.86
upstream ENSMUSE00000689855 Chr2:76053375..76053464 TGGAATCGCCATATCTAATGC Chr2:76053418..76053438 59.91 42.86

*** Putative Vector Insertion (Chr 2: 76053374 - 76129381) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000644386 Chr2:76049080..76049220 ACGGAACAGCGTTCACATTT Chr2:76049086..76049105 60.56 45
downstream ENSMUSE00000689854 Chr2:76032946..76033010 TGGGGACATCAGTTCAAAGG Chr2:76032950..76032969 60.89 50
downstream ENSMUSE00000689853 Chr2:75996353..75996485 TAGGCATCGCTGACATTCAC Chr2:75996356..75996375 59.83 50
downstream ENSMUSE00000644380 Chr2:75977892..75977967 GTTCCAAATGGGGACACAGA Chr2:75977889..75977908 60.76 50
downstream ENSMUSE00000644379 Chr2:75975396..75975463 TCAAAAGGTTTTCCGTCGAG Chr2:75975399..75975418 60.22 45
downstream ENSMUSE00000644378 Chr2:75974424..75974516 CCAAGGCCACAAAAGATGAC Chr2:75974469..75974488 60.49 50
downstream ENSMUSE00000644377 Chr2:75951561..75951611 GTCGACTTCAGCCTTGGAAC Chr2:75951548..75951567 59.85 55
downstream ENSMUSE00000644374 Chr2:75913994..75914140 GGGAAAAGTCATCGAAATGG Chr2:75914055..75914074 59.36 45
downstream ENSMUSE00000644373 Chr2:75913410..75913517 ATCAGTTGGCACACGTTGAA Chr2:75913404..75913423 60.16 45
downstream ENSMUSE00000644372 Chr2:75897033..75897142 TTTCCACCTCGGTCAGAATC Chr2:75897084..75897103 60.05 50
downstream ENSMUSE00000644371 Chr2:75888197..75888287 AATGGTGATGCTCCAAGGTC Chr2:75888207..75888226 59.93 50
downstream ENSMUSE00000644370 Chr2:75884836..75884936 GCGTGAGGTCTGTGGCTAAT Chr2:75884824..75884843 60.28 55
downstream ENSMUSE00000689850 Chr2:75868981..75869058 ACATCTCGGTGGCTTGTGAT Chr2:75868965..75868984 60.54 50
downstream ENSMUSE00000644366 Chr2:75867334..75867397 CAAGGTCACAGGCTGTCATT Chr2:75867347..75867366 58.72 50
downstream ENSMUSE00000689842 Chr2:75865884..75865907 CTATGGCAGCAATCCTCCAG Chr2:75865862..75865881 60.76 55
downstream ENSMUSE00000644365 Chr2:75860768..75860842 CCTCTCCCGATCTCCTTGTT Chr2:75860770..75860789 60.59 55
downstream ENSMUSE00000644364 Chr2:75855893..75855976 GCAGTTCATCTTTCCGGTTC Chr2:75855921..75855940 59.68 50
downstream ENSMUSE00000689847 Chr2:75844039..75844098 ACATCGGAAATAAGGGCTGA Chr2:75844023..75844042 59.53 45
downstream ENSMUSE00000644363 Chr2:75829189..75829344 TTTGCATTGACCTTCACCAA Chr2:75829300..75829319 60.09 40
downstream ENSMUSE00000689846 Chr2:75828779..75829344 TTTGCATTGACCTTCACCAA Chr2:75829300..75829319 60.09 40

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGCACCATCACAAGGGTAAA Chr2:76096353..76096373 59.96 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGCACCATCACAAGGGTAAA Chr2:76096353..76096373 59.96 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000075270