Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI7873
Trapped Gene
Dsg2 (ENSMUSG00000044393)
Vector Insertion
Chr 18: 20752793 - 20754460
Public Clones XST040 (baygenomics) RRJ037 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000455868 (Chr18:20752565..20752792 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGTGGCTGCACAGTATGACA Chr18:20752710..20752729 59.89 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000455868 (Chr18:20752565..20752792 +)
Downstram Exon
ENSMUSE00000455862 (Chr18:20754461..20754582 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGTGGCTGCACAGTATGACA Chr18:20752710..20752729 59.89 50 AGGTGCCCCTTCATTATTCC Chr18:20754573..20754592 60.15 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000573056 Chr18:20716608..20716845 CCCTCCTCCATCTAGGCTGT Chr18:20716609..20716628 60.61 60
upstream ENSMUSE00000712551 Chr18:20716656..20716845 GTCCCGCAGAGTCAGAGAAG Chr18:20716684..20716703 60.13 60
upstream ENSMUSE00000720126 Chr18:20716747..20716845 No primer for this exon
upstream ENSMUSE00000402351 Chr18:20731990..20732025 TGGACTTTGGAAACGGACTT Chr18:20731997..20732016 59.57 45
upstream ENSMUSE00000384276 Chr18:20733441..20733575 GAAATGAAGGCAAACCGTTC Chr18:20733454..20733473 59.55 45
upstream ENSMUSE00000407262 Chr18:20737541..20737702 TCTTGACCGGGAAGAAACAC Chr18:20737672..20737691 60.09 50
upstream ENSMUSE00000368138 Chr18:20737835..20737979 TGTTGGGTCCATTGAGGAAT Chr18:20737948..20737967 60.17 45
upstream ENSMUSE00000369599 Chr18:20739013..20739179 AGATGACCCGGAGACTCTGA Chr18:20739047..20739066 59.79 55
upstream ENSMUSE00000382404 Chr18:20741209..20741346 TATTCCTTGACGGTGGAAGC Chr18:20741221..20741240 60.07 50
upstream ENSMUSE00000708541 Chr18:20741209..20741417 TATTCCTTGACGGTGGAAGC Chr18:20741221..20741240 60.07 50
upstream ENSMUSE00000455889 Chr18:20741438..20741623 GAAGGGGGCTATTTCCACAT Chr18:20741558..20741577 60.15 50
upstream ENSMUSE00000720044 Chr18:20741438..20744054 GCATAGCACACTTCCAAGCA Chr18:20741848..20741867 60.02 50
upstream ENSMUSE00000455884 Chr18:20748449..20748714 TTCCGAGCTAGTGAGGCAAT Chr18:20748617..20748636 59.98 50
upstream ENSMUSE00000455881 Chr18:20750335..20750477 GGTTGTGGCCATATCCAAAG Chr18:20750458..20750477 60.19 50
upstream ENSMUSE00000455875 Chr18:20750773..20751000 GGAAAATAACGCACCAGGAA Chr18:20750980..20750999 59.94 45
upstream ENSMUSE00000455868 Chr18:20752565..20752792 TGTGGCTGCACAGTATGACA Chr18:20752710..20752729 59.89 50

*** Putative Vector Insertion (Chr 18: 20752793 - 20754460) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000455862 Chr18:20754461..20754582 AGGTGCCCCTTCATTATTCC Chr18:20754573..20754592 60.15 50
downstream ENSMUSE00000453360 Chr18:20756840..20757169 CTCTTGTCCTTACGGCTTCG Chr18:20757089..20757108 60.01 55
downstream ENSMUSE00000407103 Chr18:20759814..20761308 CGACCTAGGCAAACTTCAGC Chr18:20760010..20760029 60.01 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGCTCCTGCTCCGTAAGTCT Chr18:20752782..20752802 60.16 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGCTCCTGCTCCGTAAGTCT Chr18:20752782..20752802 60.16 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000044393