Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI15803
Trapped Gene
Sppl3 (ENSMUSG00000029550)
Vector Insertion
Chr 5: 115511649 - 115524823
Public Clones IST14673D1 (tigm)
Private Clones OST472789 (lexicon) OST408669 (lexicon) OST360322 (lexicon) OST308894 (lexicon)
OST279815 (lexicon)
Severity of mutation (?) Insertion after 9% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000690572 (Chr5:115511572..115511648 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGGACTCCAGTCAAGTGTCG Chr5:115511585..115511604 59.86 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000690572 (Chr5:115511572..115511648 +)
Downstram Exon
ENSMUSE00000268808 (Chr5:115524824..115524912 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGGACTCCAGTCAAGTGTCG Chr5:115511585..115511604 59.86 55 TATTGGTGCTGTTGCCATTG Chr5:115524912..115524931 60.52 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000594791 Chr5:115461533..115461624 GGCGGAACAGACCTATTCGT Chr5:115461604..115461623 61.4 55
upstream ENSMUSE00000690573 Chr5:115511188..115511211 No primer for this exon
upstream ENSMUSE00000189991 Chr5:115511571..115511648 TGGACTCCAGTCAAGTGTCG Chr5:115511585..115511604 59.86 55
upstream ENSMUSE00000690572 Chr5:115511572..115511648 TGGACTCCAGTCAAGTGTCG Chr5:115511585..115511604 59.86 55

*** Putative Vector Insertion (Chr 5: 115511649 - 115524823) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000268808 Chr5:115524824..115524912 TATTGGTGCTGTTGCCATTG Chr5:115524912..115524931 60.52 45
downstream ENSMUSE00000189982 Chr5:115532230..115532349 TTGGGTGGAATCAATGGTCT Chr5:115532258..115532277 60.17 45
downstream ENSMUSE00000189999 Chr5:115533434..115533512 GCACATCGGGAGAAGAAGAA Chr5:115533480..115533499 60.34 50
downstream ENSMUSE00000189994 Chr5:115534862..115534974 TGAGGACGAGCATGACAGAC Chr5:115534941..115534960 59.99 55
downstream ENSMUSE00000189980 Chr5:115538299..115538405 GAGAAGCCCTGAGAGAAGCA Chr5:115538390..115538409 59.83 55
downstream ENSMUSE00000189985 Chr5:115538832..115538995 AGACAGGCGAGGAACATCAC Chr5:115538972..115538991 60.27 55
downstream ENSMUSE00000189997 Chr5:115545060..115545259 GGGTGCAGTGGAAGTAGGAG Chr5:115545244..115545263 59.72 60
downstream ENSMUSE00000189988 Chr5:115545855..115545964 TTAGGTAGGCCATGGTGAGG Chr5:115545965..115545984 59.95 55
downstream ENSMUSE00000348997 Chr5:115547135..115548799 CCAAGTGTGAGGTGATGGTG Chr5:115548573..115548592 60 55
downstream ENSMUSE00000690571 Chr5:115547135..115548262 CTATCAGTTCAGCGCATCCA Chr5:115548056..115548075 59.97 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGTTAATCGCCTTGCAGCAC Chr5:115523697..115523717 60.42 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTTGCTGGACTGAATGACCA Chr5:115523674..115523694 60.24 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029550