Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI25430
Trapped Gene
Slc25a43 (ENSMUSG00000037636)
Vector Insertion
Chr X: 34315612 - 34316996
Public Clones IST10415A3 (tigm) IST14891D10 (tigm)
Private Clones OST184162 (lexicon)
Severity of mutation (?) Insertion after 81% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000394777 (ChrX:34315477..34315611 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCAGATCGTGAAAACCCAAG ChrX:34315548..34315567 60.64 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000394777 (ChrX:34315477..34315611 +)
Downstram Exon
ENSMUSE00000370867 (ChrX:34316997..34317197 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCAGATCGTGAAAACCCAAG ChrX:34315548..34315567 60.64 50 GTGCAGTTTTCTGCGTTTGA ChrX:34317179..34317198 60.03 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000355343 ChrX:34283706..34284013 GTCAGGATGGCTACGTGGAG ChrX:34283733..34283752 60.68 60
upstream ENSMUSE00000316538 ChrX:34292128..34292369 GCCCTTTATCGAGGGGTATC ChrX:34292336..34292355 59.76 55
upstream ENSMUSE00000359857 ChrX:34297763..34297935 CTTTGCCAATGTCTGTGTGG ChrX:34297857..34297876 60.15 50
upstream ENSMUSE00000394777 ChrX:34315477..34315611 GCAGATCGTGAAAACCCAAG ChrX:34315548..34315567 60.64 50

*** Putative Vector Insertion (Chr X: 34315612 - 34316996) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000370867 ChrX:34316997..34317197 GTGCAGTTTTCTGCGTTTGA ChrX:34317179..34317198 60.03 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TCCTGCTTCTCTGCCTCTTC ChrX:34315632..34315652 59.83 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TCCTGCTTCTCTGCCTCTTC ChrX:34315632..34315652 59.83 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000037636