Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI19840
Trapped Gene
Jub (ENSMUSG00000022178)
Vector Insertion
Chr 14: 55189345 - 55190437
Public Clones (sanger)
Private Clones OST379119 (lexicon)
Severity of mutation (?) Insertion after 77% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000323017 (Chr14:55190438..55190500 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGGCAGCTGAGAAGTGCTGT Chr14:55190465..55190484 60.35 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000323017 (Chr14:55190438..55190500 -)
Downstram Exon
ENSMUSE00000124170 (Chr14:55189214..55189344 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGGCAGCTGAGAAGTGCTGT Chr14:55190465..55190484 60.35 55 ACACCTGGTTGGAGAAGTCC Chr14:55189214..55189233 59 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000387666 Chr14:55195069..55196251 GGAACGGTTAGGGGAGAAAG Chr14:55196080..55196099 59.93 55
upstream ENSMUSE00000323033 Chr14:55192229..55192330 CAGTGCTTTGTCTGCTGCTC Chr14:55192234..55192253 59.93 55
upstream ENSMUSE00000124173 Chr14:55190603..55190670 AGCGTCAATGGCTCTGTCTA Chr14:55190622..55190641 58.62 50
upstream ENSMUSE00000323017 Chr14:55190438..55190500 AGGCAGCTGAGAAGTGCTGT Chr14:55190465..55190484 60.35 55

*** Putative Vector Insertion (Chr 14: 55189345 - 55190437) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000124170 Chr14:55189214..55189344 ACACCTGGTTGGAGAAGTCC Chr14:55189214..55189233 59 55
downstream ENSMUSE00000124172 Chr14:55189082..55189133 No primer for this exon
downstream ENSMUSE00000124174 Chr14:55188313..55188381 CCATGGATATCACCCTCACA Chr14:55188326..55188345 59.17 50
downstream ENSMUSE00000491884 Chr14:55186312..55187893 AAGCGGCTAGAACCAAGTCA Chr14:55186804..55186823 60.01 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GCAGCTGAGAAGTGCTGTGT Chr14:55190461..55190481 59.37 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCAGCTGAGAAGTGCTGTGT Chr14:55190461..55190481 59.37 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 GTGTCTGCGGCCACTTAATC Chr14:55190445..55190465 60.67 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CACTCGTGACTGGGAAAACC Chr14:55190434..55190454 60.54 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000022178