Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28684
Trapped Gene
Emp3 (ENSMUSG00000040212)
Vector Insertion
Chr 7: 53173606 - 53174687
Public Clones not available
Private Clones OST23678 (lexicon)
Severity of mutation (?) Insertion after 66% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000225665 (Chr7:53174688..53174828 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCTCATGGTGCTGTCTCTCA Chr7:53174787..53174806 59.98 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000225665 (Chr7:53174688..53174828 -)
Downstram Exon
ENSMUSE00000369132 (Chr7:53173398..53173605 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCTCATGGTGCTGTCTCTCA Chr7:53174787..53174806 59.98 55 GATGTAGACAGTGCCGCTGA Chr7:53173435..53173454 60.02 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000332025 Chr7:53176612..53176658 No primer for this exon
upstream ENSMUSE00000225683 Chr7:53175659..53175774 GCCATGTCACTCCTCCTGTT Chr7:53175720..53175739 60.12 55
upstream ENSMUSE00000225674 Chr7:53175305..53175407 AAACATGGGCCTGCAGTAAC Chr7:53175318..53175337 60 50
upstream ENSMUSE00000225665 Chr7:53174688..53174828 CCTCATGGTGCTGTCTCTCA Chr7:53174787..53174806 59.98 55

*** Putative Vector Insertion (Chr 7: 53173606 - 53174687) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000369132 Chr7:53173398..53173605 GATGTAGACAGTGCCGCTGA Chr7:53173435..53173454 60.02 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CAGCTTTGCACCAGTAAGCA Chr7:53174679..53174699 60.19 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGCTTTGCACCAGTAAGCA Chr7:53174679..53174699 60.19 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040212