Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16644
Trapped Gene
Abhd14a (ENSMUSG00000042210)
Vector Insertion
Chr 9: 106346638 - 106347856
Public Clones IST13607B11 (tigm)
Private Clones OST456403 (lexicon) OST431886 (lexicon) OST430047 (lexicon) OST425461 (lexicon)
OST415745 (lexicon) OST415241 (lexicon) OST402396 (lexicon) OST369030 (lexicon)
OST310652 (lexicon) OST302003 (lexicon) OST301366 (lexicon) OST295407 (lexicon)
OST267005 (lexicon) OST205946 (lexicon) OST68268 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000432249 (Chr9:106347857..106347982 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ACAGCCTGACTTCGGAGCTA Chr9:106347889..106347908 60.16 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000432249 (Chr9:106347857..106347982 -)
Downstram Exon
ENSMUSE00000261912 (Chr9:106346421..106346637 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ACAGCCTGACTTCGGAGCTA Chr9:106347889..106347908 60.16 55 GCAGCACCTCTCGGTAAAAG Chr9:106346418..106346437 60.01 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000475377 Chr9:106349862..106349958 GCTAGGCTGTTTGGCAGTTG Chr9:106349921..106349940 60.96 55
upstream ENSMUSE00000432252 Chr9:106348101..106348160 TCTGCATCAGAACCCCTACA Chr9:106348141..106348160 59.24 50
upstream ENSMUSE00000432249 Chr9:106347857..106347982 ACAGCCTGACTTCGGAGCTA Chr9:106347889..106347908 60.16 55

*** Putative Vector Insertion (Chr 9: 106346638 - 106347856) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000261912 Chr9:106346421..106346637 GCAGCACCTCTCGGTAAAAG Chr9:106346418..106346437 60.01 55
downstream ENSMUSE00000530289 Chr9:106346158..106346273 No primer for this exon
downstream ENSMUSE00000261893 Chr9:106346154..106346275 No primer for this exon
downstream ENSMUSE00000634556 Chr9:106345969..106346003 GTGGTCCTTTCTCGTGACCT Chr9:106345958..106345977 59.15 55
downstream ENSMUSE00000691835 Chr9:106345390..106345407 No primer for this exon
downstream ENSMUSE00000261874 Chr9:106342952..106343187 TGTGCATAATTCCTGGTGGA Chr9:106342952..106342971 59.92 45
downstream ENSMUSE00000530280 Chr9:106342952..106343136 TGTGCATAATTCCTGGTGGA Chr9:106342952..106342971 59.92 45
downstream ENSMUSE00000261851 Chr9:106342385..106342735 ATCATGCAGCTTCACCACAG Chr9:106342609..106342628 59.86 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GAGTGAGGCCTGCAGAAGAG Chr9:106347865..106347885 60.28 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CACTCGTGACTGGGAAAACC Chr9:106347789..106347809 60.54 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CCCGGCTCCTGATTTTCTAT Chr9:106347937..106347957 60.41 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCCGGCTCCTGATTTTCTAT Chr9:106347937..106347957 60.41 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000042210