Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI27705
Trapped Gene
Tmem67 (ENSMUSG00000049488)
Vector Insertion
Chr 4: 12007116 - 12013058
Public Clones not available
Private Clones OST52563 (lexicon)
Severity of mutation (?) Insertion after 18% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000397784 (Chr4:12013059..12013147 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000397784 (Chr4:12013059..12013147 -)
Downstram Exon
ENSMUSE00000393683 (Chr4:12007022..12007115 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon CCCTCAGCAGTTAAGCCACT Chr4:12007032..12007051 59.5 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000676235 Chr4:12016433..12016575 GATGCACCGTCTCTCTGCTC Chr4:12016521..12016540 61.14 60
upstream ENSMUSE00000391626 Chr4:12014862..12015104 GCGGTCAGATCTCGTTCTTC Chr4:12015032..12015051 59.96 55
upstream ENSMUSE00000676225 Chr4:12014862..12015074 GCGGTCAGATCTCGTTCTTC Chr4:12015032..12015051 59.96 55
upstream ENSMUSE00000676234 Chr4:12014862..12015148 GCGGTCAGATCTCGTTCTTC Chr4:12015032..12015051 59.96 55
upstream ENSMUSE00000397784 Chr4:12013059..12013147 No primer for this exon

*** Putative Vector Insertion (Chr 4: 12007116 - 12013058) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000393683 Chr4:12007022..12007115 CCCTCAGCAGTTAAGCCACT Chr4:12007032..12007051 59.5 55
downstream ENSMUSE00000348722 Chr4:12004483..12004582 ACAAAGCTCGCAAGTTGCTT Chr4:12004508..12004527 60.2 45
downstream ENSMUSE00000386476 Chr4:12002770..12002839 No primer for this exon
downstream ENSMUSE00000421059 Chr4:12002602..12002676 TCCATAACGTGCAGTGGAAA Chr4:12002586..12002605 60.11 45
downstream ENSMUSE00000421056 Chr4:12001041..12001103 TGCAAATACTTGGCAAACCA Chr4:12001041..12001060 60.11 40
downstream ENSMUSE00000421054 Chr4:11997596..11997750 CAATCCAGCAGTGCTTTCAA Chr4:11997600..11997619 59.99 45
downstream ENSMUSE00000421052 Chr4:11997384..11997492 CAGCCAAGGAAGGTTCTGTC Chr4:11997449..11997468 59.84 55
downstream ENSMUSE00000384965 Chr4:11996561..11996638 AGGAAGCAGCAACAAACTTCA Chr4:11996595..11996615 60.04 42.86
downstream ENSMUSE00000340028 Chr4:11996015..11996080 TTGCTGGTACGTTGTTCCAA Chr4:11995996..11996015 60.15 45
downstream ENSMUSE00000377739 Chr4:11990821..11990977 TACAGGGCTGCTGAAGTCAA Chr4:11990908..11990927 59.59 50
downstream ENSMUSE00000341772 Chr4:11990182..11990305 CTAAGAAAATGCGCCGAGTC Chr4:11990239..11990258 59.98 50
downstream ENSMUSE00000378795 Chr4:11988902..11989007 TGTTGGGTACAAGGCGTATG Chr4:11988966..11988985 59.46 50
downstream ENSMUSE00000676224 Chr4:11987199..11989007 TGTGTTGGGTACAAGGCGTA Chr4:11988964..11988983 60.03 50
downstream ENSMUSE00000332647 Chr4:11985668..11985724 CACAGATGCGTCTCCTTGAT Chr4:11985655..11985674 58.83 50
downstream ENSMUSE00000412289 Chr4:11984463..11984561 CATCCCGCTGTCTTCAAAAG Chr4:11984478..11984497 60.77 50
downstream ENSMUSE00000335506 Chr4:11982178..11982276 AACACATTGGCCAGATCACC Chr4:11982205..11982224 60.79 50
downstream ENSMUSE00000375356 Chr4:11981893..11981979 GCGCACCCCACATAAGTAAC Chr4:11981884..11981903 60.4 55
downstream ENSMUSE00000371097 Chr4:11980822..11980921 GCCGTTCCCAATCAATAAAG Chr4:11980830..11980849 59.41 45
downstream ENSMUSE00000409474 Chr4:11980594..11980733 TTCATTTGCCACGAAATACG Chr4:11980644..11980663 59.56 40
downstream ENSMUSE00000376475 Chr4:11978535..11978675 AGCAGTAGCCACGGCATATC Chr4:11978540..11978559 60.26 55
downstream ENSMUSE00000370542 Chr4:11974957..11975037 CAAACTGCCGGATTTTGTCT Chr4:11974958..11974977 60.11 45
downstream ENSMUSE00000408936 Chr4:11974345..11974461 TGGACTGACCTCCCATGAAT Chr4:11974378..11974397 60.33 50
downstream ENSMUSE00000410948 Chr4:11973150..11973266 CTGCAATCTGAAACGTCTGC Chr4:11973181..11973200 59.6 50
downstream ENSMUSE00000420553 Chr4:11972942..11973046 CAAAAGTACTCCCCGACGAA Chr4:11972979..11972998 60.1 50
downstream ENSMUSE00000420548 Chr4:11970612..11970714 CCATCCCAAGGATTCTTTCA Chr4:11970629..11970648 59.86 45
downstream ENSMUSE00000347937 Chr4:11967782..11967924 GTGGCCTCGTTCCCATAATA Chr4:11967854..11967873 59.78 50
downstream ENSMUSE00000388378 Chr4:11966792..11967039 TGTTTTGGTTGCCAAATTCTT Chr4:11966964..11966984 59.48 33.33

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAAATGTCTAATCGCCTTGCAG Chr4:12012993..12013015 59.41 40.91 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATGTCCGTGACTGGGAAAAC Chr4:12009992..12010012 59.83 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000049488