Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI287
Trapped Gene
Ccdc12 (ENSMUSG00000019659)
Vector Insertion
Chr 9: 110594888 - 110610949
Public Clones GC0468 (tigem) RRC231 (baygenomics)
Private Clones OST447099 (lexicon) OST440597 (lexicon) OST193153 (lexicon) OST82597 (lexicon)
OST6694 (lexicon) OST2331 (lexicon)
Severity of mutation (?) Insertion after 32% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000305810 (Chr9:110594820..110594887 +)
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
ENSMUSE00000305810 (Chr9:110594820..110594887 +)
Downstram Exon
ENSMUSE00000220088 (Chr9:110610950..110611029 +)
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 ENSMUSE00000220094 Chr9:110559057..110559162 No primer for this exon
upstream ENSMUSE00000305810 Chr9:110594820..110594887 No primer for this exon

*** Putative Vector Insertion (Chr 9: 110594888 - 110610949) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000220088 Chr9:110610950..110611029 No primer for this exon
downstream ENSMUSE00000220093 Chr9:110612398..110612459 No primer for this exon
downstream ENSMUSE00000220091 Chr9:110612631..110612665 No primer for this exon
downstream ENSMUSE00000220089 Chr9:110613590..110613666 No primer for this exon
downstream ENSMUSE00000447808 Chr9:110613755..110614094 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGTCACTTGGCACCACTTTT Chr9:110597896..110597916 60.01 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGGCAGAGGGTAAGATCCAC Chr9:110603857..110603877 60.07 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000019659