Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI4582
Trapped Gene
A930001N09Rik (ENSMUSG00000048249)
Vector Insertion
Chr 17: 26852720 - 26873733
Public Clones XT0125 (sanger) YHD319 (baygenomics) (egtc)
Private Clones OST260280 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000701239 (Chr17:26852595..26852719 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ACCCGTCAGGAAGGACATAA Chr17:26852615..26852634 59.4 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000701239 (Chr17:26852595..26852719 +)
Downstram Exon
ENSMUSE00000701238 (Chr17:26873734..26873928 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ACCCGTCAGGAAGGACATAA Chr17:26852615..26852634 59.4 50 CTGCTTGGGTCACCACTTTT Chr17:26873778..26873797 60.15 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

*** Putative Vector Insertion (Chr 17: 26852720 - 26873733) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000701238 Chr17:26873734..26873928 CTGCTTGGGTCACCACTTTT Chr17:26873778..26873797 60.15 50
downstream ENSMUSE00000139415 Chr17:26876488..26876613 AAAGGTGTGGCTTCGAAAGG Chr17:26876547..26876566 61.53 50
downstream ENSMUSE00000139417 Chr17:26878987..26880076 GGGAATCGGAAACAGACTGA Chr17:26879314..26879333 60.05 50
downstream ENSMUSE00000407710 Chr17:26894750..26894944 ATTCCACTCAGAAGGCCTCA Chr17:26894898..26894917 59.8 50
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 TGACAGTAATCGCCTTGCAG Chr17:26861729..26861749 60.01 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGAACCCGTGACTGGGAAAA Chr17:26861765..26861785 61.81 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000048249