Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI30278
Trapped Gene
Btf3l4 (ENSMUSG00000028568)
Vector Insertion
Chr 4: 108505017 - 108506160
Public Clones (sanger) (sanger) D048D07 (ggtc) D024E08 (ggtc) D031C06 (ggtc)
D024C09 (ggtc) D048D07 (ggtc) D024F08 (ggtc) D024C09 (ggtc) IST10834B3 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000662460 (Chr4:108506113..108506159 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000662460 (Chr4:108506113..108506159 -)
Downstram Exon
ENSMUSE00000662459 (Chr4:108505018..108505056 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000662460 Chr4:108506113..108506159 No primer for this exon
upstream ENSMUSE00000662466 Chr4:108506113..108506219 GAGGCAGCCATCTTGCTCTT Chr4:108506150..108506169 61.97 55
upstream ENSMUSE00000662461 Chr4:108505748..108506169 CAGTGTCAGACGCTTTGAGC Chr4:108505789..108505808 59.78 55
upstream ENSMUSE00000662459 Chr4:108505018..108505056 No primer for this exon

*** Putative Vector Insertion (Chr 4: 108505017 - 108506160) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000662457 Chr4:108504311..108504536 TGTGCCAATCTTAGCTGTGC Chr4:108504443..108504462 60.02 50
downstream ENSMUSE00000662465 Chr4:108503123..108503188 CTATCCGGACCTGAGCTTGA Chr4:108503109..108503128 60.35 55
downstream ENSMUSE00000716151 Chr4:108503123..108503188 CTATCCGGACCTGAGCTTGA Chr4:108503109..108503128 60.35 55
downstream ENSMUSE00000525636 Chr4:108498705..108498818 TTCTTCTTCCTGCGAGCTGT Chr4:108498774..108498793 60.28 50
downstream ENSMUSE00000662464 Chr4:108491741..108491942 GCAAAGGTGTTAGCGGAGAG Chr4:108491838..108491857 60.01 55
downstream ENSMUSE00000662463 Chr4:108490790..108490849 CTGGTTTGGGCGCTTTACTA Chr4:108490801..108490820 60.26 50
downstream ENSMUSE00000662456 Chr4:108489437..108489491 GCTTCATTTTTCGATGCTTCA Chr4:108489430..108489450 60.34 38.1
downstream ENSMUSE00000662458 Chr4:108489396..108489491 TCTAGTCCATGCCAGCTTCC Chr4:108489388..108489407 60.36 55
downstream ENSMUSE00000601484 Chr4:108489323..108489491 TCTAGTCCATGCCAGCTTCC Chr4:108489388..108489407 60.36 55
downstream ENSMUSE00000662462 Chr4:108489055..108489491 CAAATGACCGAGAACTGCTG Chr4:108489264..108489283 59.44 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GAGGCAGCCATCTTGCTCTT Chr4:108506148..108506168 61.97 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGGTCGTGACTGGGAAAACC Chr4:108506093..108506113 61.32 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028568