Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28605
Trapped Gene
Med27 (ENSMUSG00000026799)
Vector Insertion
Chr 2: 29378372 - 29379886
Public Clones not available
Private Clones OST26421 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000162913 (Chr2:29378294..29378371 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTCGTGGTCAGGTCCTTCAT Chr2:29378351..29378370 59.97 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000162913 (Chr2:29378294..29378371 +)
Downstram Exon
ENSMUSE00000360310 (Chr2:29379887..29380308 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTCGTGGTCAGGTCCTTCAT Chr2:29378351..29378370 59.97 55 TTCGGAAGTCTCTCCACGTC Chr2:29379989..29380008 60.39 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000385559 Chr2:29202356..29202567 GCGTGAGTAGGGTCTTCGAC Chr2:29202444..29202463 59.87 60
upstream ENSMUSE00000162927 Chr2:29205366..29205510 ATCCTGTGCAGGACAAAACC Chr2:29205446..29205465 59.97 50
upstream ENSMUSE00000162923 Chr2:29268908..29269038 ACCATGCAGGTCTAGCGTCT Chr2:29268915..29268934 59.9 55
upstream ENSMUSE00000162915 Chr2:29326813..29326906 GGGACTTCAGCAATGCTTCT Chr2:29326886..29326905 59.43 50
upstream ENSMUSE00000697121 Chr2:29332853..29332906 CAGAGCATTACTGGCCCTTG Chr2:29332874..29332893 60.79 55
upstream ENSMUSE00000162919 Chr2:29355739..29355846 GCACGATTGTGAAGGGGTAT Chr2:29355797..29355816 59.82 50
upstream ENSMUSE00000162917 Chr2:29364943..29364984 GGTCCAAATCCAGCTACCAA Chr2:29364953..29364972 59.93 50
upstream ENSMUSE00000162913 Chr2:29378294..29378371 GTCGTGGTCAGGTCCTTCAT Chr2:29378351..29378370 59.97 55

*** Putative Vector Insertion (Chr 2: 29378372 - 29379886) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000360310 Chr2:29379887..29380308 TTCGGAAGTCTCTCCACGTC Chr2:29379989..29380008 60.39 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTGGTCAGGTCCTTCATGGT Chr2:29378355..29378375 59.82 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGGTCAGGTCCTTCATGGT Chr2:29378355..29378375 59.82 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000026799