Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16436
Trapped Gene
Otud5 (ENSMUSG00000031154)
Vector Insertion
Chr X: 7451080 - 7451358
Public Clones not available
Private Clones OST461337 (lexicon)
Severity of mutation (?) Insertion after 92% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000206924 (ChrX:7450966..7451079 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TTGTGTCCCTCTACCCTGCT ChrX:7451014..7451033 59.72 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000206924 (ChrX:7450966..7451079 +)
Downstram Exon
ENSMUSE00000703769 (ChrX:7451359..7451980 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TTGTGTCCCTCTACCCTGCT ChrX:7451014..7451033 59.72 55 TCTCATCATCGTCCCAATCA ChrX:7451388..7451407 60.01 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000703766 ChrX:7418982..7419836 CTTTGCTGTGGGGTACTTGG ChrX:7419213..7419232 60.54 55
upstream ENSMUSE00000703776 ChrX:7419208..7419594 CTTTGCTGTGGGGTACTTGG ChrX:7419213..7419232 60.54 55
upstream ENSMUSE00000703765 ChrX:7419242..7419594 AGGCTTCTCCACCTCCTTGT ChrX:7419532..7419551 60.25 55
upstream ENSMUSE00000241716 ChrX:7419243..7419836 AGTCCGGAACGTGAAGAGGT ChrX:7419735..7419754 61.08 55
upstream ENSMUSE00000703775 ChrX:7419724..7419836 AGTCCGGAACGTGAAGAGGT ChrX:7419735..7419754 61.08 55
upstream ENSMUSE00000241708 ChrX:7433430..7433523 GGACGGTGCCTGTCTATTTC ChrX:7433495..7433514 59.56 55
upstream ENSMUSE00000206921 ChrX:7444641..7444705 TGCATGAGGTTGTTCGAAAG ChrX:7444668..7444687 59.84 45
upstream ENSMUSE00000241693 ChrX:7444793..7444949 CCGTCCTGTGGAGGTGTATC ChrX:7444918..7444937 60.39 60
upstream ENSMUSE00000703768 ChrX:7444793..7444964 TGTACAACCGTCCTGTGGAG ChrX:7444911..7444930 59.59 55
upstream ENSMUSE00000206923 ChrX:7445049..7445197 TGGGCCTACCGTCATTTAAG ChrX:7445172..7445191 59.95 50
upstream ENSMUSE00000206922 ChrX:7449122..7449325 GTGGCTGAGGGATCAAGAGA ChrX:7449274..7449293 60.35 55
upstream ENSMUSE00000703764 ChrX:7449122..7449307 GTGGCTGAGGGATCAAGAGA ChrX:7449274..7449293 60.35 55
upstream ENSMUSE00000241673 ChrX:7450680..7450881 CTAGGCATTAAGCCCCCTTC ChrX:7450812..7450831 60.06 55
upstream ENSMUSE00000206924 ChrX:7450966..7451079 TTGTGTCCCTCTACCCTGCT ChrX:7451014..7451033 59.72 55

*** Putative Vector Insertion (Chr X: 7451080 - 7451358) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000348974 ChrX:7451356..7451986 TCTCATCATCGTCCCAATCA ChrX:7451388..7451407 60.01 45
downstream ENSMUSE00000703763 ChrX:7451359..7453746 TCTCATCATCGTCCCAATCA ChrX:7451388..7451407 60.01 45
downstream ENSMUSE00000703769 ChrX:7451359..7451980 TCTCATCATCGTCCCAATCA ChrX:7451388..7451407 60.01 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAAGCCTCCTTAGGGGATGG ChrX:7451082..7451102 60.4 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TAAGCCTCCTTAGGGGATGG ChrX:7451082..7451102 60.4 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031154