Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI19969
Trapped Gene
D230025D16Rik (ENSMUSG00000031889)
Vector Insertion
Chr 8: 107774692 - 107775497
Public Clones not available
Private Clones OST376215 (lexicon)
Severity of mutation (?) Insertion after 93% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000214341 (Chr8:107774619..107774691 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTTTGGCTCCACATTCTGCT Chr8:107774646..107774665 60.26 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000214341 (Chr8:107774619..107774691 +)
Downstram Exon
ENSMUSE00000377433 (Chr8:107775498..107776949 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTTTGGCTCCACATTCTGCT Chr8:107774646..107774665 60.26 50 CTGTAGGCCCAGGAACCATA Chr8:107776741..107776760 59.95 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000405558 Chr8:107749099..107749386 CGAGCAATGGGAATTCACTC Chr8:107749364..107749383 60.6 50
upstream ENSMUSE00000236963 Chr8:107755028..107755110 AAGCACTGTCGCATCATCAG Chr8:107755063..107755082 60.02 50
upstream ENSMUSE00000236942 Chr8:107758382..107758465 GACTCAGGACGGGATCACAC Chr8:107758414..107758433 60.54 60
upstream ENSMUSE00000236921 Chr8:107762323..107762366 No primer for this exon
upstream ENSMUSE00000236900 Chr8:107763571..107763650 CCATCGCTCCTACCATTGAG Chr8:107763594..107763613 60.62 55
upstream ENSMUSE00000236883 Chr8:107763878..107763972 GAGCAGCTCTTCCACCTCAA Chr8:107763892..107763911 60.68 55
upstream ENSMUSE00000236858 Chr8:107764741..107764838 TTTTGCCCATGGTCTAGCTT Chr8:107764746..107764765 59.71 45
upstream ENSMUSE00000236840 Chr8:107764927..107765039 AGATGGAACTGGACCCTCAG Chr8:107764993..107765012 59.1 55
upstream ENSMUSE00000214347 Chr8:107770321..107770454 GTATTTGAGCGTGCGGTGTA Chr8:107770359..107770378 59.76 50
upstream ENSMUSE00000214340 Chr8:107770738..107770821 AAGTTCCGTCCAAGTGCAAC Chr8:107770769..107770788 60.16 50
upstream ENSMUSE00000214342 Chr8:107771996..107772078 TGTCCTGCATACCAATTACCC Chr8:107772037..107772057 59.7 47.62
upstream ENSMUSE00000214344 Chr8:107772643..107772686 TACCACCGCTGTGAGTTCAA Chr8:107772644..107772663 60.3 50
upstream ENSMUSE00000214348 Chr8:107773319..107773362 TGCAGGTGGTCAGACTGAAA Chr8:107773323..107773342 60.44 50
upstream ENSMUSE00000214346 Chr8:107773497..107773555 GGAGAAGCCTGTTGTCTTGC Chr8:107773532..107773551 60 55
upstream ENSMUSE00000214341 Chr8:107774619..107774691 GTTTGGCTCCACATTCTGCT Chr8:107774646..107774665 60.26 50

*** Putative Vector Insertion (Chr 8: 107774692 - 107775497) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000377433 Chr8:107775498..107776949 CTGTAGGCCCAGGAACCATA Chr8:107776741..107776760 59.95 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CAGCGGATGATCTTTGAGGT Chr8:107774675..107774695 60.22 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGCGGATGATCTTTGAGGT Chr8:107774675..107774695 60.22 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031889