Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI34117
Trapped Gene
Slc16a11 (ENSMUSG00000040938)
Vector Insertion
Chr 11: 70027767 - 70028003
Public Clones IST14532D11 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000323716 (Chr11:70027582..70027766 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TACTGGAGAGAGCGGTCCAA Chr11:70027626..70027645 60.93 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000323716 (Chr11:70027582..70027766 +)
Downstram Exon
ENSMUSE00000323708 (Chr11:70028004..70028177 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TACTGGAGAGAGCGGTCCAA Chr11:70027626..70027645 60.93 55 CGTAAGAGCCCGTAGGAGAG Chr11:70028113..70028132 59.1 60

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000323716 Chr11:70027582..70027766 TACTGGAGAGAGCGGTCCAA Chr11:70027626..70027645 60.93 55

*** Putative Vector Insertion (Chr 11: 70027767 - 70028003) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000323708 Chr11:70028004..70028177 CGTAAGAGCCCGTAGGAGAG Chr11:70028113..70028132 59.1 60
downstream ENSMUSE00000588390 Chr11:70028013..70028214 CGTAAGAGCCCGTAGGAGAG Chr11:70028113..70028132 59.1 60
downstream ENSMUSE00000459102 Chr11:70028019..70028214 CGTAAGAGCCCGTAGGAGAG Chr11:70028113..70028132 59.1 60
downstream ENSMUSE00000323701 Chr11:70028457..70028600 AGCCAAGCGAGGTTAGGACT Chr11:70028540..70028559 60.4 55
downstream ENSMUSE00000459118 Chr11:70028457..70028600 AGCCAAGCGAGGTTAGGACT Chr11:70028540..70028559 60.4 55
downstream ENSMUSE00000459114 Chr11:70028786..70029915 AGCTCAGCCCTTACCTGACA Chr11:70029570..70029589 60.01 55
downstream ENSMUSE00000588389 Chr11:70028786..70029553 CCAGCCGAAAGTATCAAGGA Chr11:70028949..70028968 60.21 50
downstream ENSMUSE00000588388 Chr11:70029639..70029914 GATGAAAGAGCTGCACACCA Chr11:70029703..70029722 59.99 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GAAAGAGGGTTTGGGAAGGA Chr11:70027774..70027794 60.41 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GAAAGAGGGTTTGGGAAGGA Chr11:70027774..70027794 60.41 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040938