Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI5902
Trapped Gene
Pxn (ENSMUSG00000029528)
Vector Insertion
Chr 5: 115956816 - 115956878
Public Clones CSD297 (baygenomics) HMA329 (baygenomics) YHD449 (baygenomics) A003A02 (ggtc)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000650726 (Chr5:115956721..115956877 +)
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
ENSMUSE00000650726 (Chr5:115956721..115956877 +)
Downstram Exon
ENSMUSE00000690307 (Chr5:115956817..115956877 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon CTGGTCCTCAGACGCCAGTC Chr5:115956865..115956884 63.39 65

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000650726 Chr5:115956721..115956877 No primer for this exon

*** Putative Vector Insertion (Chr 5: 115956816 - 115956878) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000690307 Chr5:115956817..115956877 CTGGTCCTCAGACGCCAGTC Chr5:115956865..115956884 63.39 65
downstream ENSMUSE00000690306 Chr5:115993084..115993096 No primer for this exon
downstream ENSMUSE00000650725 Chr5:115994352..115994578 TGGTTTCCAGTTGGGTAGGA Chr5:115994454..115994473 60.35 50
downstream ENSMUSE00000267355 Chr5:115994890..115995005 TTGGAGGCACTGGAATTTTT Chr5:115994948..115994967 59.55 40
downstream ENSMUSE00000267348 Chr5:115995381..115995517 CCAGTAACAGCCGGTCAAGT Chr5:115995478..115995497 60.17 55
downstream ENSMUSE00000267342 Chr5:115995613..115995814 CCCCCAAGGGAGTGTTATTT Chr5:115995696..115995715 60.05 50
downstream ENSMUSE00000189819 Chr5:115996822..115996957 ATCTGACAGTGACGCCATGA Chr5:115996954..115996973 60.28 50
downstream ENSMUSE00000650711 Chr5:116001497..116001598 TCCATCCACTCTCTGTTCCA Chr5:116001529..116001548 59.18 50
downstream ENSMUSE00000189826 Chr5:116001860..116002030 GACTGCAGACTCCCCAACAT Chr5:116001957..116001976 60.12 55
downstream ENSMUSE00000189816 Chr5:116002113..116002286 GATGGGTCCGTTGCAGTAGT Chr5:116002283..116002302 60 55
downstream ENSMUSE00000189810 Chr5:116002773..116002854 GGGCACAGAAGAAGTGTTCC Chr5:116002830..116002849 59.7 55
downstream ENSMUSE00000189813 Chr5:116002987..116003135 GGTGTTGAGGGCTGAAATGT Chr5:116003108..116003127 59.97 50
downstream ENSMUSE00000480796 Chr5:116003878..116005988 AGATACCCCGACCTCGTCTT Chr5:116005867..116005886 59.96 55
downstream ENSMUSE00000650708 Chr5:116003878..116004987 GTGAGGTGCTGGCTCTTAGG Chr5:116004429..116004448 60.01 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CGTCTGAGGACCAGCCATAA Chr5:115956850..115956870 61.2 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector

Come back to gene ENSMUSG00000029528