Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI8972
Trapped Gene
Ubac1 (ENSMUSG00000036352)
Vector Insertion
Chr 2: 25863474 - 25864380
Public Clones RRE311 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 55% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000236713 (Chr2:25864381..25864489 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGAGCGAGTGGATGAGACTG Chr2:25864448..25864467 60.14 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000236713 (Chr2:25864381..25864489 -)
Downstram Exon
ENSMUSE00000236704 (Chr2:25863239..25863473 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGAGCGAGTGGATGAGACTG Chr2:25864448..25864467 60.14 55 GCATCTGCTCGAAATTCCTT Chr2:25863221..25863240 59.42 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000236743 Chr2:25876917..25877231 AGGACACATCGGTGGAGAAG Chr2:25876941..25876960 60.11 55
upstream ENSMUSE00000236738 Chr2:25871816..25871936 TGTGACCCACCACAAGCTAA Chr2:25871885..25871904 60.15 50
upstream ENSMUSE00000236732 Chr2:25870412..25870485 AAAAGCGTGTTCCTTCTCCA Chr2:25870448..25870467 59.85 45
upstream ENSMUSE00000236726 Chr2:25866042..25866149 TGTCCAGACCACCATGAGAG Chr2:25866044..25866063 59.66 55
upstream ENSMUSE00000236719 Chr2:25864681..25864783 TCTCTCATTGAGGTGGCACA Chr2:25864734..25864753 60.4 50
upstream ENSMUSE00000236713 Chr2:25864381..25864489 TGAGCGAGTGGATGAGACTG Chr2:25864448..25864467 60.14 55

*** Putative Vector Insertion (Chr 2: 25863474 - 25864380) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000236704 Chr2:25863239..25863473 GCATCTGCTCGAAATTCCTT Chr2:25863221..25863240 59.42 45
downstream ENSMUSE00000698330 Chr2:25863239..25863339 GCATCTGCTCGAAATTCCTT Chr2:25863221..25863240 59.42 45
downstream ENSMUSE00000236696 Chr2:25862047..25862133 CATCTCCATCAGCGAAATGA Chr2:25862088..25862107 59.76 45
downstream ENSMUSE00000236689 Chr2:25860846..25860984 CAGGATGGCCTGAAAGAGAG Chr2:25860873..25860892 59.94 55
downstream ENSMUSE00000340339 Chr2:25854068..25854587 ATACATTGGGCTCCACAAGC Chr2:25854146..25854165 59.96 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCCTGTGATTCTCCTTCCAA Chr2:25864329..25864349 60.04 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCCTGTGATTCTCCTTCCAA Chr2:25864329..25864349 60.04 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000036352