Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI24273
Trapped Gene
Fxyd6 (ENSMUSG00000066705)
Vector Insertion
Chr 9: 45198935 - 45199643
Public Clones not available
Private Clones OST226181 (lexicon) OST128909 (lexicon)
Severity of mutation (?) Insertion after 60% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000535757 (Chr9:45198860..45198934 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCCTCTTCTCCGTTGGGATA Chr9:45198902..45198921 59.62 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000535757 (Chr9:45198860..45198934 +)
Downstram Exon
ENSMUSE00000535752 (Chr9:45199644..45199680 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCCTCTTCTCCGTTGGGATA Chr9:45198902..45198921 59.62 50 GGCTTCTGATTGAAACTGCAC Chr9:45199679..45199699 59.87 47.62

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000535767 Chr9:45178522..45178571 No primer for this exon
upstream ENSMUSE00000535764 Chr9:45198071..45198130 No primer for this exon
upstream ENSMUSE00000535762 Chr9:45198717..45198755 No primer for this exon
upstream ENSMUSE00000535757 Chr9:45198860..45198934 TCCTCTTCTCCGTTGGGATA Chr9:45198902..45198921 59.62 50

*** Putative Vector Insertion (Chr 9: 45198935 - 45199643) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000535752 Chr9:45199644..45199680 GGCTTCTGATTGAAACTGCAC Chr9:45199679..45199699 59.87 47.62
downstream ENSMUSE00000535750 Chr9:45200298..45200347 GTGATGAGGTTCTCCACCTG Chr9:45200342..45200361 58.05 55
downstream ENSMUSE00000535749 Chr9:45200759..45200808 AGGCTGCACCTCAGTTCTCT Chr9:45200800..45200819 59.21 55
downstream ENSMUSE00000535748 Chr9:45203066..45204237 TCCAAGGGAACACATTAGGC Chr9:45204141..45204160 59.93 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TTGCTGTGGTCCTCTTCTCC Chr9:45198894..45198914 60.39 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGCTGTGGTCCTCTTCTCC Chr9:45198894..45198914 60.39 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000066705