Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13963
Trapped Gene
Mapbpip (ENSMUSG00000028062)
Vector Insertion
Chr 3: 88353927 - 88354617
Public Clones CMHD-GT_157E11-3 (cmhd)
Private Clones OST346020 (lexicon) OST326477 (lexicon) OST295025 (lexicon) OST284977 (lexicon)
OST256279 (lexicon) OST240162 (lexicon) OST188327 (lexicon) OST173065 (lexicon)
OST62163 (lexicon) OST53819 (lexicon) OST12773 (lexicon)
Severity of mutation (?) Insertion after 86% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000175605 (Chr3:88354618..88354707 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTAGGCTTCGGAATGCTCAA Chr3:88354625..88354644 60.35 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000175605 (Chr3:88354618..88354707 -)
Downstram Exon
ENSMUSE00000175603 (Chr3:88353742..88353926 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTAGGCTTCGGAATGCTCAA Chr3:88354625..88354644 60.35 50 CCATCACGCTGTTATGATGC Chr3:88353837..88353856 60.1 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000395088 Chr3:88356718..88356844 GGTGCAGGTCAGGGTTAAGA Chr3:88356795..88356814 60.11 55
upstream ENSMUSE00000719880 Chr3:88356652..88356781 CAGAGCACCCTGTGAGTGAA Chr3:88356709..88356728 60.02 55
upstream ENSMUSE00000175602 Chr3:88356277..88356439 GGGAACCAAGCGTTTAATGA Chr3:88356311..88356330 59.94 45
upstream ENSMUSE00000712689 Chr3:88356277..88356439 GGGAACCAAGCGTTTAATGA Chr3:88356311..88356330 59.94 45
upstream ENSMUSE00000175605 Chr3:88354618..88354707 GTAGGCTTCGGAATGCTCAA Chr3:88354625..88354644 60.35 50

*** Putative Vector Insertion (Chr 3: 88353927 - 88354617) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000175603 Chr3:88353742..88353926 CCATCACGCTGTTATGATGC Chr3:88353837..88353856 60.1 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTTCGGAATGCTCAAGGCTA Chr3:88354618..88354638 60.48 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TATGCATCGTGACTGGGAAA Chr3:88354553..88354573 60.07 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028062