Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI735
Trapped Gene
Ctcf (ENSMUSG00000005698)
Vector Insertion
Chr 8: 108201251 - 108203970
Public Clones DA0119 (sanger) W084D01 (ggtc)
Private Clones not available
Severity of mutation (?) Insertion after 83% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000229249 (Chr8:108201115..108201250 +)
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
ENSMUSE00000229249 (Chr8:108201115..108201250 +)
Downstram Exon
ENSMUSE00000229217 (Chr8:108203971..108204159 +)
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 ENSMUSE00000229428 Chr8:108160479..108160620 No primer for this exon
upstream ENSMUSE00000229392 Chr8:108167416..108167532 No primer for this exon
upstream ENSMUSE00000229368 Chr8:108187654..108188443 No primer for this exon
upstream ENSMUSE00000214403 Chr8:108188756..108188926 No primer for this exon
upstream ENSMUSE00000214402 Chr8:108190559..108190692 No primer for this exon
upstream ENSMUSE00000214398 Chr8:108194131..108194251 No primer for this exon
upstream ENSMUSE00000214401 Chr8:108195191..108195340 No primer for this exon
upstream ENSMUSE00000439139 Chr8:108198769..108198929 No primer for this exon
upstream ENSMUSE00000229273 Chr8:108199896..108200078 No primer for this exon
upstream ENSMUSE00000229249 Chr8:108201115..108201250 No primer for this exon

*** Putative Vector Insertion (Chr 8: 108201251 - 108203970) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000229217 Chr8:108203971..108204159 No primer for this exon
downstream ENSMUSE00000358422 Chr8:108205335..108206821 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGGGTCATTGTTGATTTGGT Chr8:108201257..108201277 58.67 40 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGGGTCATTGTTGATTTGGT Chr8:108201257..108201277 58.67 40 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000005698