Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI5233
Trapped Gene
Usp10 (ENSMUSG00000031826)
Vector Insertion
Chr 8: 122434840 - 122454747
Public Clones RST132 (baygenomics) XK358 (baygenomics) XK582 (baygenomics) YTA408 (baygenomics)
M064E02 (ggtc) M098A04 (ggtc) 5SE285H04 (ggtc) E125C08 (ggtc) W193E04 (ggtc)
E068E08 (ggtc) IST14754B9 (tigm) IST14415A5 (tigm) IST10832H11 (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
ENSMUSE00000678738 (Chr8:122434752..122434839 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCACCGAACCTCATTGAGAC Chr8:122434791..122434810 60.67 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000678738 (Chr8:122434752..122434839 +)
Downstram Exon
ENSMUSE00000678684 (Chr8:122454748..122454765 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCACCGAACCTCATTGAGAC Chr8:122434791..122434810 60.67 55 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000678738 Chr8:122434752..122434839 GCACCGAACCTCATTGAGAC Chr8:122434791..122434810 60.67 55

*** Putative Vector Insertion (Chr 8: 122434840 - 122454747) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000678684 Chr8:122454748..122454765 No primer for this exon
downstream ENSMUSE00000317169 Chr8:122455749..122455817 ACAGAAGAGCGGGGAGTCAC Chr8:122455816..122455835 61.78 60
downstream ENSMUSE00000317164 Chr8:122460431..122460488 TCTGGCAGTTCATCTTCAGC Chr8:122460489..122460508 59.12 50
downstream ENSMUSE00000678732 Chr8:122465010..122466038 CCCCTCACTAGGTTCGATGA Chr8:122465074..122465093 60.06 55
downstream ENSMUSE00000213445 Chr8:122465013..122466038 CCCGGGGATTCAAGTATTTT Chr8:122465727..122465746 60.01 45
downstream ENSMUSE00000213441 Chr8:122470975..122471066 TTGCAATGACACTGGCTTATG Chr8:122471023..122471043 59.74 42.86
downstream ENSMUSE00000213436 Chr8:122471601..122471710 GTGATACATCGGAGGGCAAG Chr8:122471642..122471661 60.48 55
downstream ENSMUSE00000213433 Chr8:122472318..122472373 ACTCATTCATGAGCCGAACA Chr8:122472340..122472359 59.24 45
downstream ENSMUSE00000213431 Chr8:122472579..122472682 TTCAGACAGGCTCGACTTGA Chr8:122472682..122472701 59.7 50
downstream ENSMUSE00000213444 Chr8:122474259..122474358 TACTCCTCTGCGTCCTCCTG Chr8:122474287..122474306 60.54 60
downstream ENSMUSE00000213446 Chr8:122475821..122475998 TTCCAGCTCCTCGTCCTCTA Chr8:122475879..122475898 60.09 55
downstream ENSMUSE00000213439 Chr8:122477080..122477245 CCTGGACTGTGCGTATCTTG Chr8:122477183..122477202 59.31 55
downstream ENSMUSE00000213434 Chr8:122478689..122478833 GGCAGCTTCTCCAGAGTCAC Chr8:122478729..122478748 60.14 60
downstream ENSMUSE00000213435 Chr8:122480098..122480163 ATTTTTGATGCCTGGAGAAAGT Chr8:122480124..122480145 59.14 36.36
downstream ENSMUSE00000427692 Chr8:122480483..122481457 AGCGGTTTCCCTCTCGTAAT Chr8:122481194..122481213 60.1 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGAGGGTATCTCCTCCTGGT Chr8:122452797..122452817 59.37 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGAGGGTATCTCCTCCTGGT Chr8:122440797..122440817 59.37 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031826