Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI9685
Trapped Gene
Ubqln4 (ENSMUSG00000008604)
Vector Insertion
Chr 3: 88363699 - 88367029
Public Clones XG905 (baygenomics) XG130 (baygenomics) IST14850F3 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 50% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000175601 (Chr3:88363540..88363698 +)
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
ENSMUSE00000175601 (Chr3:88363540..88363698 +)
Downstram Exon
ENSMUSE00000175600 (Chr3:88367030..88367255 +)
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 ENSMUSE00000398215 Chr3:88357638..88357834 No primer for this exon
upstream ENSMUSE00000175593 Chr3:88359260..88359411 No primer for this exon
upstream ENSMUSE00000175597 Chr3:88359712..88359914 No primer for this exon
upstream ENSMUSE00000175594 Chr3:88360579..88360841 No primer for this exon
upstream ENSMUSE00000175601 Chr3:88363540..88363698 No primer for this exon

*** Putative Vector Insertion (Chr 3: 88363699 - 88367029) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000175600 Chr3:88367030..88367255 No primer for this exon
downstream ENSMUSE00000175596 Chr3:88368292..88368431 No primer for this exon
downstream ENSMUSE00000175599 Chr3:88368929..88369012 No primer for this exon
downstream ENSMUSE00000175598 Chr3:88369135..88369250 No primer for this exon
downstream ENSMUSE00000175591 Chr3:88369613..88369799 No primer for this exon
downstream ENSMUSE00000347364 Chr3:88372003..88373647 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GACTCCCTTAATCGCCTTGC Chr3:88366742..88366762 61.09 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATCCCCGAAGGAAAAGATGT Chr3:88366721..88366741 59.77 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000008604