Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI31580
Trapped Gene
Rps6ka2 (ENSMUSG00000023809)
Vector Insertion
Chr 17: 7374793 - 7432261
Public Clones IST10235G7 (tigm) IST14819E9 (tigm) IST11964H8 (tigm) IST14692E5 (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
ENSMUSE00000447545 (Chr17:7374464..7374792 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GATGGAGCTGAGCATGAAGA Chr17:7374693..7374712 59.07 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000447545 (Chr17:7374464..7374792 +)
Downstram Exon
ENSMUSE00000556280 (Chr17:7432262..7432378 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GATGGAGCTGAGCATGAAGA Chr17:7374693..7374712 59.07 50 AGCCTTCCTTCACATGGTTG Chr17:7432316..7432335 60.11 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000447545 Chr17:7374464..7374792 GATGGAGCTGAGCATGAAGA Chr17:7374693..7374712 59.07 50
upstream ENSMUSE00000614339 Chr17:7374521..7374792 GATGGAGCTGAGCATGAAGA Chr17:7374693..7374712 59.07 50

*** Putative Vector Insertion (Chr 17: 7374793 - 7432261) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000556280 Chr17:7432262..7432378 AGCCTTCCTTCACATGGTTG Chr17:7432316..7432335 60.11 50
downstream ENSMUSE00000658409 Chr17:7432262..7432378 AGCCTTCCTTCACATGGTTG Chr17:7432316..7432335 60.11 50
downstream ENSMUSE00000512907 Chr17:7440395..7440476 ACCTTCATGGCGTAGAGCTG Chr17:7440456..7440475 60.42 55
downstream ENSMUSE00000658408 Chr17:7440395..7440476 ACCTTCATGGCGTAGAGCTG Chr17:7440456..7440475 60.42 55
downstream ENSMUSE00000556272 Chr17:7451051..7451131 TTAGATCTGACCCGGTCTCG Chr17:7451075..7451094 60.21 55
downstream ENSMUSE00000511456 Chr17:7453641..7453720 AAAGCCTGGTGAAGAGGTCA Chr17:7453715..7453734 59.84 50
downstream ENSMUSE00000447082 Chr17:7455889..7455995 CATCCTCCTCCGTGAACATC Chr17:7455913..7455932 60.47 55
downstream ENSMUSE00000500940 Chr17:7458761..7458798 AATGTGTCCCTCTTCATCCAG Chr17:7458790..7458810 59 47.62
downstream ENSMUSE00000556258 Chr17:7460180..7460322 CTCCTTGCTCAAGCCAAAAT Chr17:7460202..7460221 59.45 45
downstream ENSMUSE00000658407 Chr17:7463460..7463486 AACCTGAAGTGTGCACGATG Chr17:7463487..7463506 59.75 50
downstream ENSMUSE00000507879 Chr17:7465353..7465423 ATGAGGGCCATTGTTTCCTT Chr17:7465420..7465439 60.69 45
downstream ENSMUSE00000482414 Chr17:7466477..7466565 CTCCGCACTGAGGAACTGAG Chr17:7466516..7466535 61.14 60
downstream ENSMUSE00000556248 Chr17:7475941..7476005 GACAAAGAACGGGTGACGTT Chr17:7475993..7476012 60.01 50
downstream ENSMUSE00000503144 Chr17:7481812..7481914 TAAACTCGGGGTCAAAGTGG Chr17:7481899..7481918 59.96 50
downstream ENSMUSE00000504173 Chr17:7486118..7486248 AGGCCACAAAGCTGAATCCT Chr17:7486186..7486205 61.15 50
downstream ENSMUSE00000503691 Chr17:7487093..7487218 GTACACACCGCTTGCACACT Chr17:7487189..7487208 59.83 55
downstream ENSMUSE00000499964 Chr17:7493264..7493353 ATAGCGCAGGAGGATCTCAA Chr17:7493323..7493342 59.94 50
downstream ENSMUSE00000484323 Chr17:7494979..7495137 TCCTGGCGATGGTATAGAGC Chr17:7495114..7495133 60.2 55
downstream ENSMUSE00000556220 Chr17:7495189..7495212 No primer for this exon
downstream ENSMUSE00000556228 Chr17:7497095..7497256 AGATTCGGGGTTTCCAGACT Chr17:7497163..7497182 59.94 50
downstream ENSMUSE00000460422 Chr17:7499552..7499628 GTACAGCAGGATTCCCAAGC Chr17:7499617..7499636 59.7 55
downstream ENSMUSE00000478069 Chr17:7500364..7500481 CTCCTCAGGGGTATCGTCTG Chr17:7500409..7500428 59.67 60
downstream ENSMUSE00000135540 Chr17:7503632..7503769 AACTGCTGTTAGGCGTTGCT Chr17:7503688..7503707 60.08 50
downstream ENSMUSE00000475355 Chr17:7504565..7507662 CAACAGGAATCACGCTCTCA Chr17:7505349..7505368 59.98 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AATTGTCATGTGGGTCACCA Chr17:7422781..7422801 59.66 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AATTGTCATGTGGGTCACCA Chr17:7422781..7422801 59.66 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000023809