Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI27957
Trapped Gene
Lgtn (ENSMUSG00000026427)
Vector Insertion
Chr 1: 133061787 - 133062903
Public Clones not available
Private Clones OST43362 (lexicon)
Severity of mutation (?) Insertion after 76% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000158971 (Chr1:133061697..133061786 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGGTCCGAAAGATCATCACG Chr1:133061723..133061742 60.07 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000158971 (Chr1:133061697..133061786 +)
Downstram Exon
ENSMUSE00000158984 (Chr1:133062904..133062999 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGGTCCGAAAGATCATCACG Chr1:133061723..133061742 60.07 50 GAGCTTCGTGACCAAGTGCT Chr1:133062979..133062998 60.6 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000492514 Chr1:133049773..133050002 GCCACTCCTTCGTTTTGTTG Chr1:133049874..133049893 60.67 50
upstream ENSMUSE00000502768 Chr1:133049825..133050002 CTGGCGTCTGTGCTCTTCTT Chr1:133049901..133049920 60.73 55
upstream ENSMUSE00000158959 Chr1:133050806..133050996 ATGTTCACAAAGGGGATTCG Chr1:133050910..133050929 59.79 45
upstream ENSMUSE00000158958 Chr1:133051745..133051828 TGGCCTCTGGTATTGGAAAA Chr1:133051792..133051811 60.44 45
upstream ENSMUSE00000250310 Chr1:133052210..133052300 AAGTACAGCAAGGCGACCTC Chr1:133052255..133052274 59.5 55
upstream ENSMUSE00000250304 Chr1:133054769..133054876 CATGTCCACAGCTCAGATGC Chr1:133054796..133054815 60.44 55
upstream ENSMUSE00000480771 Chr1:133056987..133057201 CCACTGGACCCCACAGATAG Chr1:133057024..133057043 60.38 60
upstream ENSMUSE00000158978 Chr1:133057862..133057979 CTGTTACTGCGGTGCTTCCT Chr1:133057876..133057895 60.45 55
upstream ENSMUSE00000158974 Chr1:133060097..133060142 TCCTGAAGGACAGCAACTGG Chr1:133060097..133060116 61.39 55
upstream ENSMUSE00000158975 Chr1:133060980..133061083 CAGGAGCAGATTGTCCAGGT Chr1:133061007..133061026 60.26 55
upstream ENSMUSE00000158982 Chr1:133061197..133061346 AGCAGGGAACAGCCCTATCT Chr1:133061255..133061274 60.23 55
upstream ENSMUSE00000158971 Chr1:133061697..133061786 AGGTCCGAAAGATCATCACG Chr1:133061723..133061742 60.07 50

*** Putative Vector Insertion (Chr 1: 133061787 - 133062903) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000158984 Chr1:133062904..133062999 GAGCTTCGTGACCAAGTGCT Chr1:133062979..133062998 60.6 55
downstream ENSMUSE00000158973 Chr1:133064697..133064817 GGTCTTCAGTGCAAGGGTGA Chr1:133064808..133064827 61.26 55
downstream ENSMUSE00000516727 Chr1:133067514..133067688 AAGTTCCGGACCACAGTCAC Chr1:133067536..133067555 60.01 55
downstream ENSMUSE00000691714 Chr1:133068498..133068811 TTTCGCTGGACCTCAGTTTT Chr1:133068626..133068645 59.85 45
downstream ENSMUSE00000447257 Chr1:133069881..133070048 ATGGGGTCCACTGCATAAAA Chr1:133069979..133069998 60.19 45
downstream ENSMUSE00000447223 Chr1:133075177..133075218 GAGGAGCAGGACAAGATCCA Chr1:133075203..133075222 60.35 55
downstream ENSMUSE00000691722 Chr1:133079345..133079463 TGGGGGTATTGAGCTGGTAA Chr1:133079390..133079409 60.32 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGTGGATGCAGACAACAGAA Chr1:133061767..133061787 59.68 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGTGGATGCAGACAACAGAA Chr1:133061767..133061787 59.68 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000026427