Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16126
Trapped Gene
St5 (ENSMUSG00000031024)
Vector Insertion
Chr 7: 116713626 - 116759811
Public Clones (sanger) (sanger) (sanger) D119E05 (ggtc) (ggtc) D119E05 (ggtc)
IST14563G9 (tigm) IST14226B10 (tigm) IST10455E10 (tigm) IST13574D7 (tigm)
IST10040H11 (tigm) IST11406B3 (tigm) IST10054E9 (tigm) IST14180F5 (tigm)
IST14231A2 (tigm) IST14635E6 (tigm) IST14936B9 (tigm) IST10040G11 (tigm)
IST11927H5HMF1 (tigm) IST14335C2 (tigm) IST14288F9 (tigm) IST15069D12 (tigm)
IST14569H11 (tigm) IST14560E5 (tigm) IST14577A8 (tigm)
Private Clones OST466279 (lexicon) OST345840 (lexicon) OST332667 (lexicon) OST318064 (lexicon)
OST303688 (lexicon) OST302770 (lexicon) OST292153 (lexicon) OST279503 (lexicon)
OST250607 (lexicon) OST246082 (lexicon) OST240000 (lexicon) OST236649 (lexicon)
OST222649 (lexicon) OST205200 (lexicon) OST191580 (lexicon) OST191354 (lexicon)
OST189935 (lexicon) OST186778 (lexicon) OST184011 (lexicon) OST179561 (lexicon)
OST149119 (lexicon) OST138205 (lexicon) OST137056 (lexicon) OST134012 (lexicon)
OST87317 (lexicon) OST73067 (lexicon) OST68137 (lexicon) OST65715 (lexicon)
OST62527 (lexicon) OST59119 (lexicon) OST52726 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000514123 (Chr7:116759812..116760082 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCAAGAAATCACCCGGACTA Chr7:116759816..116759835 60.07 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000514123 (Chr7:116759812..116760082 -)
Downstram Exon
ENSMUSE00000359869 (Chr7:116713521..116713625 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCAAGAAATCACCCGGACTA Chr7:116759816..116759835 60.07 50 GTCATGGTCATTTCGGCTCT Chr7:116713568..116713587 60.08 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000466750 Chr7:116760572..116760661 CAAGAGACTGCTTGGGCTCT Chr7:116760637..116760656 59.74 55
upstream ENSMUSE00000514123 Chr7:116759812..116760082 GCAAGAAATCACCCGGACTA Chr7:116759816..116759835 60.07 50

*** Putative Vector Insertion (Chr 7: 116713626 - 116759811) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000359869 Chr7:116713521..116713625 GTCATGGTCATTTCGGCTCT Chr7:116713568..116713587 60.08 50
downstream ENSMUSE00000384284 Chr7:116699725..116700975 TTTGCGTAATGAAGGGGTTC Chr7:116700707..116700726 59.94 45
downstream ENSMUSE00000277150 Chr7:116696489..116696625 CCAAACTTGGGTTGACTCTCA Chr7:116696511..116696531 60.13 47.62
downstream ENSMUSE00000277144 Chr7:116688591..116688742 CATCCTGTGCAAAGAGTCCA Chr7:116688611..116688630 59.83 50
downstream ENSMUSE00000277141 Chr7:116685834..116686049 CTTGGGTAATCGTGGCAAAC Chr7:116685944..116685963 60.37 50
downstream ENSMUSE00000369167 Chr7:116684850..116684946 ATGCTGTCTCAAGGCTGGAC Chr7:116684837..116684856 60.42 55
downstream ENSMUSE00000404874 Chr7:116683906..116683950 No primer for this exon
downstream ENSMUSE00000376492 Chr7:116683176..116683360 TGTTCCGAGATGGCTTCTTC Chr7:116683189..116683208 60.34 50
downstream ENSMUSE00000205638 Chr7:116682448..116682557 AAGCAAAACTGGGGGATAGC Chr7:116682468..116682487 60.45 50
downstream ENSMUSE00000205635 Chr7:116681790..116681859 AAGCGCCTACAATAGCCAAA Chr7:116681772..116681791 59.88 45
downstream ENSMUSE00000205633 Chr7:116678808..116678885 AAACAAACCGAAGCAGCCTA Chr7:116678792..116678811 59.88 45
downstream ENSMUSE00000205640 Chr7:116678148..116678288 CGCTCCACCTCATCTAGGAC Chr7:116678247..116678266 59.83 60
downstream ENSMUSE00000528082 Chr7:116674596..116674744 TAAGCTGACGCACACTGAGG Chr7:116674635..116674654 60.2 55
downstream ENSMUSE00000205632 Chr7:116671128..116671305 GGGACAGCAGACAATGTCAA Chr7:116671172..116671191 59.68 50
downstream ENSMUSE00000205631 Chr7:116670858..116670899 CGGTCAGATCCCAGATTCAC Chr7:116670849..116670868 60.47 55
downstream ENSMUSE00000205629 Chr7:116669740..116669851 AGTGTGTCCTCGTCGTCCAT Chr7:116669810..116669829 60.6 55
downstream ENSMUSE00000205637 Chr7:116669053..116669292 TTCAAGAAAACGGCGGATAC Chr7:116669101..116669120 60.07 45
downstream ENSMUSE00000205639 Chr7:116668777..116668863 AACTTGTTCATCCCGCTCTG Chr7:116668769..116668788 60.26 50
downstream ENSMUSE00000506992 Chr7:116667434..116668194 GCAAGACTCCATCCAAGCTC Chr7:116667864..116667883 59.96 55
downstream ENSMUSE00000333624 Chr7:116667425..116668194 GCAAGACTCCATCCAAGCTC Chr7:116667864..116667883 59.96 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGAATTGTTAATCGCCTTGC Chr7:116759748..116759768 58.77 40 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTAAAGGATGCACGTGACTGG Chr7:116759751..116759772 60.69 52.38 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AGGGTCCCAGGAAGAAGAGA Chr7:116760102..116760122 60.19 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCTAGGACGTGACTGGGAAA Chr7:116760019..116760039 60.1 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031024