Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI24596
Trapped Gene
BX890623.7-202 (ENSMUSG00000078893)
Vector Insertion
Chr 2: 175541408 - 175544861
Public Clones IST12687H12 (tigm) IST11322H9 (tigm)
Private Clones OST213820 (lexicon) OST41879 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000678838 (Chr2:175541286..175541407 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGTGATGTGTTCTGCGTGAC Chr2:175541337..175541356 59.27 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000678838 (Chr2:175541286..175541407 +)
Downstram Exon
ENSMUSE00000678844 (Chr2:175544862..175544916 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGTGATGTGTTCTGCGTGAC Chr2:175541337..175541356 59.27 50 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000678845 Chr2:175541264..175541407 TGTGATGTGTTCTGCGTGAC Chr2:175541337..175541356 59.27 50
upstream ENSMUSE00000678838 Chr2:175541286..175541407 TGTGATGTGTTCTGCGTGAC Chr2:175541337..175541356 59.27 50

*** Putative Vector Insertion (Chr 2: 175541408 - 175544861) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000678844 Chr2:175544862..175544916 No primer for this exon
downstream ENSMUSE00000678840 Chr2:175544914..175544916 No primer for this exon
downstream ENSMUSE00000678843 Chr2:175550042..175550168 CACCTGCACGTCATCATAGG Chr2:175550074..175550093 60.14 55
downstream ENSMUSE00000678837 Chr2:175550375..175551476 CAGCAATGTTCGGAAACAAA Chr2:175551160..175551179 59.71 40
downstream ENSMUSE00000678842 Chr2:175550375..175550435 No primer for this exon
downstream ENSMUSE00000714091 Chr2:175551591..175553148 AGTCAGAGGGTTGCTCTGGA Chr2:175551631..175551650 59.99 55
downstream ENSMUSE00000717988 Chr2:175551591..175553148 AGTCAGAGGGTTGCTCTGGA Chr2:175551631..175551650 59.99 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CATGGTAAGTGCCAGGTCATC Chr2:175544405..175544426 60.39 52.38 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CATGGTAAGTGCCAGGTCATC Chr2:175544405..175544426 60.39 52.38 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000078893