Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20220
Trapped Gene
Esam (ENSMUSG00000001946)
Vector Insertion
Chr 9: 37339261 - 37341737
Public Clones IST13043A9 (tigm)
Private Clones OST369358 (lexicon)
Severity of mutation (?) Insertion after 22% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000216868 (Chr9:37339073..37339260 +)
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
ENSMUSE00000216868 (Chr9:37339073..37339260 +)
Downstram Exon
ENSMUSE00000216860 (Chr9:37341738..37341939 +)
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 ENSMUSE00000330708 Chr9:37335698..37335875 No primer for this exon
upstream ENSMUSE00000216868 Chr9:37339073..37339260 No primer for this exon

*** Putative Vector Insertion (Chr 9: 37339261 - 37341737) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000216860 Chr9:37341738..37341939 No primer for this exon
downstream ENSMUSE00000354605 Chr9:37342123..37342278 No primer for this exon
downstream ENSMUSE00000397851 Chr9:37344183..37344305 No primer for this exon
downstream ENSMUSE00000216857 Chr9:37344591..37344717 No primer for this exon
downstream ENSMUSE00000407528 Chr9:37345049..37345891 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GAAGGAACCAAACCAGGTGA Chr9:37339246..37339266 59.94 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GAAGGAACCAAACCAGGTGA Chr9:37339246..37339266 59.94 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000001946