Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI6077
Trapped Gene
Ppp1cc (ENSMUSG00000004455)
Vector Insertion
Chr 5: 122624125 - 122624988
Public Clones YHD158 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 93% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000593285 (Chr5:122624064..122624124 +)
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
ENSMUSE00000593285 (Chr5:122624064..122624124 +)
Downstram Exon
ENSMUSE00000593284 (Chr5:122624989..122625059 +)
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 ENSMUSE00000706655 Chr5:122608365..122608624 No primer for this exon
upstream ENSMUSE00000189074 Chr5:122618184..122618315 No primer for this exon
upstream ENSMUSE00000516431 Chr5:122618928..122619158 No primer for this exon
upstream ENSMUSE00000189075 Chr5:122621831..122621935 No primer for this exon
upstream ENSMUSE00000189069 Chr5:122622741..122622964 No primer for this exon
upstream ENSMUSE00000496953 Chr5:122623155..122623289 No primer for this exon
upstream ENSMUSE00000593285 Chr5:122624064..122624124 No primer for this exon
upstream ENSMUSE00000661838 Chr5:122624064..122625276 No primer for this exon

*** Putative Vector Insertion (Chr 5: 122624125 - 122624988) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000593284 Chr5:122624989..122625059 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CACGAGACCTGTCACACCAC Chr5:122624100..122624120 60.21 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CACGAGACCTGTCACACCAC Chr5:122624100..122624120 60.21 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000004455