Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13367
Trapped Gene
Hipk4 (ENSMUSG00000040424)
Vector Insertion
Chr 7: 28314817 - 28315706
Public Clones CMHD-GT_316B4-3 (cmhd)
Private Clones OST6704 (lexicon)
Severity of mutation (?) Insertion after 90% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000306538 (Chr7:28313968..28314816 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCTCAAATCCTTGGACCAGA Chr7:28313997..28314016 60.19 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000306538 (Chr7:28313968..28314816 +)
Downstram Exon
ENSMUSE00000397059 (Chr7:28315707..28316191 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCTCAAATCCTTGGACCAGA Chr7:28313997..28314016 60.19 50 CCTGACGACCTCCAACATTT Chr7:28316085..28316104 59.97 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000676383 Chr7:28308536..28309000 AAGAACGATGCGTACCGAAG Chr7:28308662..28308681 60.27 50
upstream ENSMUSE00000306544 Chr7:28312078..28313671 GGTGCGCTACATCTGTGAGA Chr7:28313518..28313537 60.02 55
upstream ENSMUSE00000676382 Chr7:28313315..28313671 GGTGCGCTACATCTGTGAGA Chr7:28313518..28313537 60.02 55
upstream ENSMUSE00000306538 Chr7:28313968..28314816 GCTCAAATCCTTGGACCAGA Chr7:28313997..28314016 60.19 50

*** Putative Vector Insertion (Chr 7: 28314817 - 28315706) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000397059 Chr7:28315707..28316191 CCTGACGACCTCCAACATTT Chr7:28316085..28316104 59.97 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGACTGGCACCCAGAGCTTA Chr7:28314831..28314851 60.01 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ACAGGTCGTGACTGGGAAAA Chr7:28314862..28314882 60.54 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040424