Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16619
Trapped Gene
Gss (ENSMUSG00000027610)
Vector Insertion
Chr 2: 155393624 - 155397254
Public Clones not available
Private Clones OST456835 (lexicon) OST288365 (lexicon)
Severity of mutation (?) Insertion after 59% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000171092 (Chr2:155397255..155397321 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CTTCCGAGATGGCTACATGC Chr2:155397275..155397294 60.76 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000171092 (Chr2:155397255..155397321 -)
Downstram Exon
ENSMUSE00000171097 (Chr2:155393429..155393623 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CTTCCGAGATGGCTACATGC Chr2:155397275..155397294 60.76 55 GCTGTATGGCAATGTCTGGA Chr2:155393535..155393554 59.68 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000639694 Chr2:155418430..155418466 No primer for this exon
upstream ENSMUSE00000324830 Chr2:155413178..155413312 AGCTCGAAGAACTGGCAAAG Chr2:155413247..155413266 59.76 50
upstream ENSMUSE00000171100 Chr2:155407624..155407769 GCTGTGCAGATGGACTTCAA Chr2:155407681..155407700 59.99 50
upstream ENSMUSE00000171099 Chr2:155404448..155404523 GGACGACTATACTGCCCGTCT Chr2:155404491..155404511 60.53 57.14
upstream ENSMUSE00000171085 Chr2:155404025..155404164 GGCCTGAATCGCTCAGATTA Chr2:155404133..155404152 60.32 50
upstream ENSMUSE00000171081 Chr2:155403258..155403374 AATAACCCCAGCAAGGGACT Chr2:155403303..155403322 59.83 50
upstream ENSMUSE00000171087 Chr2:155398831..155398911 GTGCCGTAGAGAACGAGCTG Chr2:155398839..155398858 61.14 60
upstream ENSMUSE00000171080 Chr2:155398660..155398737 TCTCTGGACCAAAACCGAAG Chr2:155398669..155398688 60.22 50
upstream ENSMUSE00000171092 Chr2:155397255..155397321 CTTCCGAGATGGCTACATGC Chr2:155397275..155397294 60.76 55

*** Putative Vector Insertion (Chr 2: 155393624 - 155397254) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000171097 Chr2:155393429..155393623 GCTGTATGGCAATGTCTGGA Chr2:155393535..155393554 59.68 50
downstream ENSMUSE00000171095 Chr2:155392539..155392620 AAGTGGCTAGGAGCAGCAAG Chr2:155392546..155392565 59.78 55
downstream ENSMUSE00000171089 Chr2:155390496..155390685 TGTACCATTTCCTCCCCGTA Chr2:155390633..155390652 60.18 50
downstream ENSMUSE00000368457 Chr2:155388923..155389455 AGGCACTAGAACCTGCTGGA Chr2:155388988..155389007 60.01 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTTCCGAGATGGCTACATGC Chr2:155394273..155394293 60.76 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTAGAGCCGTGACTGGGAAA Chr2:155394190..155394210 60.39 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000027610