Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI30306
Trapped Gene
CT025653.7-201 (ENSMUSG00000047412)
Vector Insertion
Chr 9: 30869711 - 30871817
Public Clones D024C06 (ggtc) D024C06 (ggtc)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000450794 (Chr9:30869626..30869710 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCATGCAGATGACGATGACA Chr9:30869690..30869709 59.78 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000450794 (Chr9:30869626..30869710 +)
Downstram Exon
ENSMUSE00000702097 (Chr9:30871818..30871927 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCATGCAGATGACGATGACA Chr9:30869690..30869709 59.78 45 TTGGACACTGAAACGGTCTG Chr9:30871870..30871889 59.72 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000702098 Chr9:30838229..30838543 AAGAGGAGGAGCAGTTGCAG Chr9:30838494..30838513 59.74 55
upstream ENSMUSE00000424081 Chr9:30860825..30861898 AGGCAGAAAATACCCGGACT Chr9:30861620..30861639 59.96 50
upstream ENSMUSE00000450794 Chr9:30869626..30869710 TCATGCAGATGACGATGACA Chr9:30869690..30869709 59.78 45

*** Putative Vector Insertion (Chr 9: 30869711 - 30871817) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000413910 Chr9:30871764..30871927 TTGGACACTGAAACGGTCTG Chr9:30871870..30871889 59.72 50
downstream ENSMUSE00000702097 Chr9:30871818..30871927 TTGGACACTGAAACGGTCTG Chr9:30871870..30871889 59.72 50
downstream ENSMUSE00000702093 Chr9:30874244..30874327 TTTAGCGAGTAAGCCCTGGT Chr9:30874307..30874326 59 50
downstream ENSMUSE00000363120 Chr9:30874339..30874544 TACTCCCCGAAGGAAGTGAA Chr9:30874388..30874407 59.67 50
downstream ENSMUSE00000702088 Chr9:30874753..30874760 No primer for this exon
downstream ENSMUSE00000638059 Chr9:30876330..30877844 GGGGAAAAGTGCTTTCACAA Chr9:30876487..30876506 60.09 45
downstream ENSMUSE00000702091 Chr9:30876330..30877844 GGGGAAAAGTGCTTTCACAA Chr9:30876487..30876506 60.09 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCAATGCTCATGCAGATGAC Chr9:30869684..30869704 60.23 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCAATGCTCATGCAGATGAC Chr9:30869684..30869704 60.23 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000047412