Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI19875
Trapped Gene
5730601F06Rik (ENSMUSG00000060510)
Vector Insertion
Chr 9: 20309623 - 20310420
Public Clones D141A11 (ggtc) D141A11 (ggtc)
Private Clones OST378290 (lexicon) OST377864 (lexicon) OST149122 (lexicon)
Severity of mutation (?) Insertion after 10% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000441280 (Chr9:20310421..20310509 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGGTAGACGGGACGGTGACT Chr9:20310445..20310464 60.96 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000441280 (Chr9:20310421..20310509 -)
Downstram Exon
ENSMUSE00000539191 (Chr9:20309496..20309622 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGGTAGACGGGACGGTGACT Chr9:20310445..20310464 60.96 60 CCAGCATGACCTCTCGGTAT Chr9:20309501..20309520 60.1 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000441314 Chr9:20325788..20325861 CGAGCTCTGAGTCCTTCTCG Chr9:20325832..20325851 60.42 60
upstream ENSMUSE00000441300 Chr9:20325464..20325563 TTTTCGCCATTGGTATCACA Chr9:20325533..20325552 59.93 40
upstream ENSMUSE00000441294 Chr9:20312463..20312629 CTCTGCTCATGCCTACCACA Chr9:20312563..20312582 60.01 55
upstream ENSMUSE00000441285 Chr9:20311172..20311326 CAGGCACATTTCACCATCAG Chr9:20311206..20311225 60.11 50
upstream ENSMUSE00000441280 Chr9:20310421..20310509 AGGTAGACGGGACGGTGACT Chr9:20310445..20310464 60.96 60

*** Putative Vector Insertion (Chr 9: 20309623 - 20310420) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000539191 Chr9:20309496..20309622 CCAGCATGACCTCTCGGTAT Chr9:20309501..20309520 60.1 55
downstream ENSMUSE00000441248 Chr9:20306485..20306565 CCACCTCGGACTCTTCTTGT Chr9:20306484..20306503 59.3 55
downstream ENSMUSE00000472341 Chr9:20305318..20305397 CTGTTGCACTGGAACTTTGC Chr9:20305301..20305320 59.49 50
downstream ENSMUSE00000441241 Chr9:20304121..20304921 TGACTTTGCATGCTCACCTC Chr9:20304772..20304791 59.99 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGACAACCAGGCAAATTGTT Chr9:20310424..20310444 59.02 40 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCATCTGTGATCCGTGACTG Chr9:20310361..20310381 60.11 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ACAAGCAGCTCTGGGATTTT Chr9:20310531..20310551 58.94 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 AGAGGTCGTGACTGGGAAAA Chr9:20310445..20310465 59.7 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000060510