Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI7903
Trapped Gene
Ptov1 (ENSMUSG00000038502)
Vector Insertion
Chr 7: 52122883 - 52124720
Public Clones RRM071 (baygenomics)
Private Clones OST352198 (lexicon)
Severity of mutation (?) Insertion after 14% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000485785 (Chr7:52124721..52125034 -)
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
ENSMUSE00000485785 (Chr7:52124721..52125034 -)
Downstram Exon
ENSMUSE00000483862 (Chr7:52122745..52122882 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon AGAGTCAGCCCAGGTGAAGA Chr7:52122799..52122818 59.99 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000485785 Chr7:52124721..52125034 No primer for this exon

*** Putative Vector Insertion (Chr 7: 52122883 - 52124720) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000483862 Chr7:52122745..52122882 AGAGTCAGCCCAGGTGAAGA Chr7:52122799..52122818 59.99 55
downstream ENSMUSE00000493133 Chr7:52122563..52122645 TGGAGTCCGAGAAGGGTCTA Chr7:52122599..52122618 59.8 55
downstream ENSMUSE00000510384 Chr7:52122430..52122487 GCTGCATGATCAACTTCTGG Chr7:52122428..52122447 59.4 50
downstream ENSMUSE00000520620 Chr7:52122180..52122287 GCTGAGAGTTTCGGAACAGG Chr7:52122232..52122251 59.99 55
downstream ENSMUSE00000520486 Chr7:52120842..52120997 CACCTCGCAAGGAGAAATGT Chr7:52120934..52120953 60.26 50
downstream ENSMUSE00000510014 Chr7:52120283..52120372 CACTCCATGACACCACTCCA Chr7:52120268..52120287 60.59 55
downstream ENSMUSE00000507974 Chr7:52120132..52120205 GATCTCCCCTTGGTTCACAT Chr7:52120112..52120131 58.79 50
downstream ENSMUSE00000464754 Chr7:52119982..52120039 GAGGCCACTGGTCTGTTCTC Chr7:52119998..52120017 59.84 60
downstream ENSMUSE00000475079 Chr7:52119753..52119857 GGAACTGTACCAGGCGTGAA Chr7:52119790..52119809 61.1 55
downstream ENSMUSE00000472769 Chr7:52118905..52119102 CTCCGAGGAGTACAGGAGCA Chr7:52119009..52119028 60.54 60
downstream ENSMUSE00000462117 Chr7:52118439..52118814 GAAACATACAGGGGCAAGGA Chr7:52118438..52118457 59.93 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GCCTGTTTCCAGAGCCTTCC Chr7:52124687..52124707 63.46 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCCTGTTTCCAGAGCCTTCC Chr7:52124687..52124707 63.46 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000038502