Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28675
Trapped Gene
Pcnp (ENSMUSG00000071533)
Vector Insertion
Chr 16: 56007596 - 56015620
Public Clones not available
Private Clones OST23929 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000699366 (Chr16:56015621..56017430 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCCTGCGGATATTCCTAACA Chr16:56015902..56015921 60.06 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000699366 (Chr16:56015621..56017430 -)
Downstram Exon
ENSMUSE00000717074 (Chr16:56007358..56007595 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCCTGCGGATATTCCTAACA Chr16:56015902..56015921 60.06 50 GCAGAGTGAGTGCTGCTGTC Chr16:56007408..56007427 59.93 60

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000655002 Chr16:56029716..56029830 GGGAGAGGAGAAGCCAGAGA Chr16:56029743..56029762 61.01 60
upstream ENSMUSE00000717002 Chr16:56029716..56029809 GGGAGAGGAGAAGCCAGAGA Chr16:56029743..56029762 61.01 60
upstream ENSMUSE00000699358 Chr16:56024647..56024781 GCCTCTTGTACTGCCACACA Chr16:56024718..56024737 59.9 55
upstream ENSMUSE00000618093 Chr16:56024337..56024551 AATGGAGGGGAAAGTTCCAG Chr16:56024479..56024498 60.3 50
upstream ENSMUSE00000720388 Chr16:56024337..56024741 AATGGAGGGGAAAGTTCCAG Chr16:56024479..56024498 60.3 50
upstream ENSMUSE00000618092 Chr16:56022168..56022242 TTGCTCCAAAAACTCTGTCG Chr16:56022198..56022217 59.05 45
upstream ENSMUSE00000618091 Chr16:56018585..56018640 AATGCCTCCAGAAGCAAAGA Chr16:56018607..56018626 59.96 45
upstream ENSMUSE00000718790 Chr16:56018233..56018640 AGGTGCCGTGCTTTCATAAT Chr16:56018567..56018586 59.6 45
upstream ENSMUSE00000699357 Chr16:56017304..56017430 GAAACGTCCACGACCAAGAC Chr16:56017310..56017329 60.56 55
upstream ENSMUSE00000699366 Chr16:56015621..56017430 GCCTGCGGATATTCCTAACA Chr16:56015902..56015921 60.06 50

*** Putative Vector Insertion (Chr 16: 56007596 - 56015620) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000717074 Chr16:56007358..56007595 GCAGAGTGAGTGCTGCTGTC Chr16:56007408..56007427 59.93 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AAATAATCGCCTTGCAGCAC Chr16:56012552..56012572 60.24 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGTCAAACTTGGTGGTGGTC Chr16:56012609..56012629 59.42 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000071533