Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI26453
Trapped Gene
A930001N09Rik (ENSMUSG00000048249)
Vector Insertion
Chr 17: 26894945 - 26896704
Public Clones not available
Private Clones OST116859 (lexicon)
Severity of mutation (?) Insertion after 74% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000407710 (Chr17:26894750..26894944 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGAGGCCTTCTGAGTGGAAT Chr17:26894876..26894895 59.8 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000407710 (Chr17:26894750..26894944 +)
Downstram Exon
ENSMUSE00000373087 (Chr17:26896705..26896894 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGAGGCCTTCTGAGTGGAAT Chr17:26894876..26894895 59.8 50 GCGCAGCTCATTACCAATCT Chr17:26896799..26896818 60.38 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000701239 Chr17:26852595..26852719 ACCCGTCAGGAAGGACATAA Chr17:26852615..26852634 59.4 50
upstream ENSMUSE00000701238 Chr17:26873734..26873928 AAGTGGTGACCCAAGCAGTT Chr17:26873758..26873777 59.62 50
upstream ENSMUSE00000139415 Chr17:26876488..26876613 CTTTCGAAGCCACACCTTTT Chr17:26876526..26876545 59.35 45
upstream ENSMUSE00000139417 Chr17:26878987..26880076 CCTGGACAATGAGGATGCTT Chr17:26879082..26879101 60.07 50
upstream ENSMUSE00000407710 Chr17:26894750..26894944 TGAGGCCTTCTGAGTGGAAT Chr17:26894876..26894895 59.8 50

*** Putative Vector Insertion (Chr 17: 26894945 - 26896704) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000373087 Chr17:26896705..26896894 GCGCAGCTCATTACCAATCT Chr17:26896799..26896818 60.38 50
downstream ENSMUSE00000343019 Chr17:26899183..26899256 GGCCCCACAACTTCACTTTA Chr17:26899244..26899263 59.97 50
downstream ENSMUSE00000403494 Chr17:26900271..26900393 CCATGCTGGGTTCTCTCTCT Chr17:26900360..26900379 59.4 55
downstream ENSMUSE00000657977 Chr17:26908237..26909832 CACCTAAGTGGCCACCAACT Chr17:26909513..26909532 60.03 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAATCGCCTTGCAGCACATC Chr17:26894996..26895016 62.25 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector

Come back to gene ENSMUSG00000048249