Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2904
Trapped Gene
Cdh1 (ENSMUSG00000000303)
Vector Insertion
Chr 8: 109190231 - 109192305
Public Clones AD0615 (sanger) RRJ666 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 92% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000330659 (Chr8:109190087..109190230 +)
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
ENSMUSE00000330659 (Chr8:109190087..109190230 +)
Downstram Exon
ENSMUSE00000469626 (Chr8:109192306..109194146 +)
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 ENSMUSE00000334955 Chr8:109127268..109127442 No primer for this exon
upstream ENSMUSE00000214612 Chr8:109128187..109128307 No primer for this exon
upstream ENSMUSE00000214610 Chr8:109172901..109173124 No primer for this exon
upstream ENSMUSE00000214615 Chr8:109177407..109177550 No primer for this exon
upstream ENSMUSE00000214606 Chr8:109177664..109177819 No primer for this exon
upstream ENSMUSE00000214613 Chr8:109180724..109180868 No primer for this exon
upstream ENSMUSE00000214611 Chr8:109181640..109181815 No primer for this exon
upstream ENSMUSE00000214609 Chr8:109182091..109182219 No primer for this exon
upstream ENSMUSE00000214607 Chr8:109183490..109183672 No primer for this exon
upstream ENSMUSE00000214608 Chr8:109184696..109184940 No primer for this exon
upstream ENSMUSE00000330782 Chr8:109185785..109185930 No primer for this exon
upstream ENSMUSE00000330746 Chr8:109187647..109187871 No primer for this exon
upstream ENSMUSE00000330716 Chr8:109188096..109188323 No primer for this exon
upstream ENSMUSE00000330686 Chr8:109189294..109189424 No primer for this exon
upstream ENSMUSE00000330659 Chr8:109190087..109190230 No primer for this exon

*** Putative Vector Insertion (Chr 8: 109190231 - 109192305) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000469626 Chr8:109192306..109194146 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GACAAGGCTGTGAGGCAAAT Chr8:109190239..109190259 60.26 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGACAAGGCTGTGAGGCAAA Chr8:109190238..109190258 60.97 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000000303