Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI10115
Trapped Gene
AC137156.3-201 (ENSMUSG00000052414)
Vector Insertion
Chr 15: 102368613 - 102368723
Public Clones RRA037 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 91% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000645707 (Chr15:102368614..102368722 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGCCCAGTCACTGCACTACA Chr15:102368637..102368656 61.53 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000645707 (Chr15:102368614..102368722 -)
Downstram Exon
ENSMUSE00000678168 (Chr15:102367085..102368722 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGCCCAGTCACTGCACTACA Chr15:102368637..102368656 61.53 55 CCAGGTACACGAGACAGCAA Chr15:102367528..102367547 59.9 55

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
upstream ENSMUSE00000415868 Chr15:102387891..102388009 GTGGGGCTCTTCAATGAACT Chr15:102387946..102387965 59.14 50
upstream ENSMUSE00000415850 Chr15:102384215..102384352 GTCCTGCTTCTAGCCCCTGT Chr15:102384236..102384255 60.79 60
upstream ENSMUSE00000415847 Chr15:102381835..102381992 CCATCCAACAGGCAAATAGG Chr15:102381835..102381854 60.32 50
upstream ENSMUSE00000415843 Chr15:102378204..102378303 CTCCCTCTCGTCATGCATCT Chr15:102378268..102378287 60.37 55
upstream ENSMUSE00000415840 Chr15:102377585..102377698 AACAGTGGCTCCATTTCTCC Chr15:102377619..102377638 59.14 50
upstream ENSMUSE00000415836 Chr15:102376836..102376988 ACGCTGACCCATCAAGTTTC Chr15:102376957..102376976 60.12 50
upstream ENSMUSE00000415833 Chr15:102371171..102371368 GTCCTCCCTGGAAAAGAAGG Chr15:102371206..102371225 60.04 55
upstream ENSMUSE00000645707 Chr15:102368614..102368722 TGCCCAGTCACTGCACTACA Chr15:102368637..102368656 61.53 55

*** Putative Vector Insertion (Chr 15: 102368613 - 102368723) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
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 CTACCGTGACTGGGAAAACC Chr15:102368656..102368676 59.45 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000052414