Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI24008
Trapped Gene
Cpsf6 (ENSMUSG00000055531)
Vector Insertion
Chr 10: 116805045 - 116813894
Public Clones IST14424C9 (tigm)
Private Clones OST237853 (lexicon) OST203946 (lexicon) OST194644 (lexicon) OST174950 (lexicon)
Severity of mutation (?) Insertion after 4% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000573809 (Chr10:116813895..116814029 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGACATTTACGCGGATGTGG Chr10:116813912..116813931 60.91 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000573809 (Chr10:116813895..116814029 -)
Downstram Exon
ENSMUSE00000459168 (Chr10:116804835..116805044 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGACATTTACGCGGATGTGG Chr10:116813912..116813931 60.91 50 ATGCGATTCTCTTCCCAGTG Chr10:116804836..116804855 60.22 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000573809 Chr10:116813895..116814029 AGACATTTACGCGGATGTGG Chr10:116813912..116813931 60.91 50

*** Putative Vector Insertion (Chr 10: 116805045 - 116813894) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000459168 Chr10:116804835..116805044 ATGCGATTCTCTTCCCAGTG Chr10:116804836..116804855 60.22 50
downstream ENSMUSE00000459152 Chr10:116803137..116803240 CATTTGCCCGATTTTCAAAG Chr10:116803128..116803147 60.43 40
downstream ENSMUSE00000459150 Chr10:116800031..116800176 TGCTTCAGATCCAACACCAA Chr10:116800124..116800143 60.24 45
downstream ENSMUSE00000459143 Chr10:116799070..116799243 AGGAAATCTGTCCCCACCAG Chr10:116799088..116799107 61.28 55
downstream ENSMUSE00000459138 Chr10:116797912..116798416 GGGACCGTAGTCACCCCTAT Chr10:116797898..116797917 60.07 60
downstream ENSMUSE00000459134 Chr10:116797496..116797611 GCACTAGCGTCAGACACAGC Chr10:116797476..116797495 59.81 60
downstream ENSMUSE00000459129 Chr10:116796049..116796202 CCAGACCCATAGGACTTGGA Chr10:116796033..116796052 59.92 55
downstream ENSMUSE00000459161 Chr10:116792994..116793180 TATGGCGACGACTCTTTTCC Chr10:116793100..116793119 60.21 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGTGAGTAATCGCCTTGCAG Chr10:116807829..116807849 60.01 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATGTGAGCGTGACTGGGAAA Chr10:116807830..116807850 61.67 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AATAATCGCCTTGCAGCACA Chr10:116804961..116804981 61.69 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CTCTCCATCTGCAACGTGAC Chr10:116804973..116804993 59.42 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000055531