Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI9232
Trapped Gene
AC137156.3-201 (ENSMUSG00000052414)
Vector Insertion
Chr 15: 102388010 - 102393744
Public Clones (sanger) RRC235 (baygenomics)
Private Clones OST275282 (lexicon) OST53189 (lexicon)
Severity of mutation (?) Insertion after 12% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000415854 (Chr15:102393745..102393841 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CGAACGGACTCAGTCATCATT Chr15:102393749..102393769 60.13 47.62 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000415854 (Chr15:102393745..102393841 -)
Downstram Exon
ENSMUSE00000415868 (Chr15:102387891..102388009 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CGAACGGACTCAGTCATCATT Chr15:102393749..102393769 60.13 47.62 TTCATTGAAGAGCCCCACTT Chr15:102387926..102387945 59.67 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000678169 Chr15:102455793..102455852 No primer for this exon
upstream ENSMUSE00000678181 Chr15:102455470..102455519 AGGACTGAAGTGTGGGGAGA Chr15:102455477..102455496 59.68 55
upstream ENSMUSE00000678179 Chr15:102424103..102424171 GACAGACCGTTTGTGTGCAG Chr15:102424122..102424141 60.36 55
upstream ENSMUSE00000415854 Chr15:102393745..102393841 CGAACGGACTCAGTCATCATT Chr15:102393749..102393769 60.13 47.62

*** Putative Vector Insertion (Chr 15: 102388010 - 102393744) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000415868 Chr15:102387891..102388009 TTCATTGAAGAGCCCCACTT Chr15:102387926..102387945 59.67 45
downstream ENSMUSE00000415850 Chr15:102384215..102384352 AGGGGGCGATGAGTCTACTT Chr15:102384238..102384257 60.1 55
downstream ENSMUSE00000415847 Chr15:102381835..102381992 CCTATTTGCCTGTTGGATGG Chr15:102381813..102381832 60.32 50
downstream ENSMUSE00000415843 Chr15:102378204..102378303 GGCATGGTCTGTCCATTAGC Chr15:102378225..102378244 60.49 55
downstream ENSMUSE00000415840 Chr15:102377585..102377698 TTTGGCTTCTGACGGCATAG Chr15:102377566..102377585 61.29 50
downstream ENSMUSE00000415836 Chr15:102376836..102376988 GTGCTGGATGAGGATCTGGT Chr15:102376844..102376863 60.08 55
downstream ENSMUSE00000415833 Chr15:102371171..102371368 TGCAGCTCTGTTTCGCTCTA Chr15:102371239..102371258 60.03 50
downstream ENSMUSE00000645707 Chr15:102368614..102368722 GAGCCACCTCATTGCGTAGT Chr15:102368667..102368686 60.28 55
downstream ENSMUSE00000678168 Chr15:102367085..102368722 CCAGGTACACGAGACAGCAA Chr15:102367528..102367547 59.9 55
downstream ENSMUSE00000645706 Chr15:102364056..102364869 TTCAGCTGCAGATCGAACAC Chr15:102364741..102364760 60.14 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATGCTTGTCCTCCTCCAGTG Chr15:102390725..102390745 60.26 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TAAGCGTGACTGGGAAAACC Chr15:102390677..102390697 60.11 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AGGTAATCGCCTTGCAGCAC Chr15:102390871..102390891 62.6 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GGACCACCTGGCAGTTCATA Chr15:102390806..102390826 60.92 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000052414