Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20684
Trapped Gene
Rab11fip4 (ENSMUSG00000017639)
Vector Insertion
Chr 11: 79474359 - 79494289
Public Clones IST14944B1 (tigm)
Private Clones OST354922 (lexicon)
Severity of mutation (?) Insertion after 18% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000578189 (Chr11:79474329..79474358 +)
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
ENSMUSE00000578189 (Chr11:79474329..79474358 +)
Downstram Exon
ENSMUSE00000108453 (Chr11:79494290..79494513 +)
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 ENSMUSE00000405301 Chr11:79404518..79404936 No primer for this exon
upstream ENSMUSE00000108441 Chr11:79433131..79433218 No primer for this exon
upstream ENSMUSE00000108452 Chr11:79433969..79434057 No primer for this exon
upstream ENSMUSE00000578189 Chr11:79474329..79474358 No primer for this exon

*** Putative Vector Insertion (Chr 11: 79474359 - 79494289) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000108453 Chr11:79494290..79494513 No primer for this exon
downstream ENSMUSE00000711083 Chr11:79496843..79497037 No primer for this exon
downstream ENSMUSE00000712624 Chr11:79496843..79497037 No primer for this exon
downstream ENSMUSE00000587041 Chr11:79497725..79497859 No primer for this exon
downstream ENSMUSE00000676062 Chr11:79497725..79497859 No primer for this exon
downstream ENSMUSE00000587040 Chr11:79498103..79498138 No primer for this exon
downstream ENSMUSE00000676061 Chr11:79498103..79498138 No primer for this exon
downstream ENSMUSE00000587039 Chr11:79498530..79498629 No primer for this exon
downstream ENSMUSE00000676060 Chr11:79498530..79498629 No primer for this exon
downstream ENSMUSE00000587038 Chr11:79498888..79498991 No primer for this exon
downstream ENSMUSE00000676059 Chr11:79498888..79498991 No primer for this exon
downstream ENSMUSE00000108495 Chr11:79500054..79500194 No primer for this exon
downstream ENSMUSE00000587037 Chr11:79500054..79500194 No primer for this exon
downstream ENSMUSE00000108440 Chr11:79503117..79503198 No primer for this exon
downstream ENSMUSE00000587036 Chr11:79503117..79503198 No primer for this exon
downstream ENSMUSE00000108494 Chr11:79503960..79504097 No primer for this exon
downstream ENSMUSE00000587035 Chr11:79503960..79504097 No primer for this exon
downstream ENSMUSE00000108493 Chr11:79504174..79504329 No primer for this exon
downstream ENSMUSE00000587034 Chr11:79504174..79504329 No primer for this exon
downstream ENSMUSE00000108446 Chr11:79505258..79505401 No primer for this exon
downstream ENSMUSE00000587033 Chr11:79505258..79505401 No primer for this exon
downstream ENSMUSE00000349652 Chr11:79506225..79511524 No primer for this exon
downstream ENSMUSE00000587032 Chr11:79506225..79507514 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTTGTTTGCAAGGCAGTCCT Chr11:79474364..79474384 60.43 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTTGTTTGCAAGGCAGTCCT Chr11:79474364..79474384 60.43 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000017639