Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13248
Trapped Gene
Pecam1 (ENSMUSG00000020717)
Vector Insertion
Chr 11: 106558669 - 106560905
Public Clones CMHD-GT_320B8-3 (cmhd) (cmhd) CMHD-GT_340F9-3 (cmhd)
Private Clones not available
Severity of mutation (?) Insertion after 16% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000325487 (Chr11:106560906..106561199 -)
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
ENSMUSE00000325487 (Chr11:106560906..106561199 -)
Downstram Exon
ENSMUSE00000325479 (Chr11:106558366..106558668 -)
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 ENSMUSE00000452699 Chr11:106611457..106611942 No primer for this exon
upstream ENSMUSE00000347116 Chr11:106576333..106576498 No primer for this exon
upstream ENSMUSE00000576240 Chr11:106576333..106576595 No primer for this exon
upstream ENSMUSE00000325497 Chr11:106576216..106576242 No primer for this exon
upstream ENSMUSE00000325487 Chr11:106560906..106561199 No primer for this exon

*** Putative Vector Insertion (Chr 11: 106558669 - 106560905) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000325479 Chr11:106558366..106558668 No primer for this exon
downstream ENSMUSE00000325470 Chr11:106557068..106557343 No primer for this exon
downstream ENSMUSE00000108522 Chr11:106552250..106552498 No primer for this exon
downstream ENSMUSE00000108545 Chr11:106550090..106550365 No primer for this exon
downstream ENSMUSE00000325450 Chr11:106546275..106546562 No primer for this exon
downstream ENSMUSE00000108539 Chr11:106545542..106545649 No primer for this exon
downstream ENSMUSE00000108547 Chr11:106544907..106544934 No primer for this exon
downstream ENSMUSE00000108521 Chr11:106544194..106544267 No primer for this exon
downstream ENSMUSE00000108535 Chr11:106542346..106542399 No primer for this exon
downstream ENSMUSE00000108537 Chr11:106540863..106540925 No primer for this exon
downstream ENSMUSE00000389077 Chr11:106533056..106533112 No primer for this exon
downstream ENSMUSE00000671175 Chr11:106532734..106532750 No primer for this exon
downstream ENSMUSE00000671178 Chr11:106523316..106523338 No primer for this exon
downstream ENSMUSE00000342087 Chr11:106523111..106523338 No primer for this exon
downstream ENSMUSE00000585656 Chr11:106515532..106516476 No primer for this exon
downstream ENSMUSE00000661174 Chr11:106515532..106516476 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GATGATGATGCTCACGTTGG Chr11:106560857..106560877 60.08 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GATGATGATGCTCACGTTGG Chr11:106560857..106560877 60.08 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TGCCATCATGGGAGGTTAAT Chr11:106561145..106561165 60.15 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TCAGCCTTCACCATCAACAG Chr11:106561182..106561202 59.83 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000020717