Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI7357
Trapped Gene
Cog5 (ENSMUSG00000035933)
Vector Insertion
Chr 12: 32345722 - 32350329
Public Clones RRU327 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 10% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000434181 (Chr12:32345582..32345721 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AACTTGCCCAAGGGATCAGT Chr12:32345675..32345694 60.88 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000434181 (Chr12:32345582..32345721 +)
Downstram Exon
ENSMUSE00000434177 (Chr12:32350330..32350387 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AACTTGCCCAAGGGATCAGT Chr12:32345675..32345694 60.88 50 CTCAATCCCAGTTGCTTGTG Chr12:32350380..32350399 59.29 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000434203 Chr12:32339734..32339848 CCAACATGGAAGGTGGAGAC Chr12:32339750..32339769 60.36 55
upstream ENSMUSE00000434181 Chr12:32345582..32345721 AACTTGCCCAAGGGATCAGT Chr12:32345675..32345694 60.88 50

*** Putative Vector Insertion (Chr 12: 32345722 - 32350329) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000434177 Chr12:32350330..32350387 CTCAATCCCAGTTGCTTGTG Chr12:32350380..32350399 59.29 50
downstream ENSMUSE00000434174 Chr12:32354635..32354689 GAGCTCCAATTCTCGTCTGC Chr12:32354673..32354692 60.1 55
downstream ENSMUSE00000434170 Chr12:32355181..32355250 CAGTTGTGCAGTACGGGCTA Chr12:32355241..32355260 59.93 55
downstream ENSMUSE00000434164 Chr12:32370518..32370638 TGCGAATTATTCTCCGAAGC Chr12:32370554..32370573 60.31 45
downstream ENSMUSE00000434151 Chr12:32445712..32445842 GCAGACGCTTAGCTTGGTTT Chr12:32445822..32445841 59.66 50
downstream ENSMUSE00000434144 Chr12:32475712..32475877 TCAAAGTCCCGAGGTTATGG Chr12:32475769..32475788 59.93 50
downstream ENSMUSE00000434136 Chr12:32486848..32486960 TGTCCACAAGCAGCACAGAT Chr12:32486962..32486981 60.47 50
downstream ENSMUSE00000434130 Chr12:32487271..32487348 No primer for this exon
downstream ENSMUSE00000434124 Chr12:32504990..32505071 GAAGAAAGTGCCAGGGTGAC Chr12:32505051..32505070 59.7 55
downstream ENSMUSE00000434118 Chr12:32518047..32518251 GTGTCGTCTTCCATGTGTGG Chr12:32518218..32518237 60.01 55
downstream ENSMUSE00000434114 Chr12:32522060..32522221 GGATCGAAGAGGCGTGATAG Chr12:32522143..32522162 59.8 55
downstream ENSMUSE00000433765 Chr12:32524620..32524719 GTGAGGTTTGCATCAACAGC Chr12:32524658..32524677 59.3 50
downstream ENSMUSE00000433760 Chr12:32554284..32554394 AACAGGGAGTTCACCACACC Chr12:32554372..32554391 59.86 55
downstream ENSMUSE00000433751 Chr12:32554937..32554999 ATTATGGTTTGCTCGGCTGT Chr12:32554989..32555008 59.6 45
downstream ENSMUSE00000319756 Chr12:32571070..32571173 GCATTCCCCATAAGATCGTG Chr12:32571098..32571117 60.3 50
downstream ENSMUSE00000319748 Chr12:32578836..32579073 TTTCCCACCTTCACCAAGAG Chr12:32579049..32579068 60.08 50
downstream ENSMUSE00000433730 Chr12:32585762..32585838 TCCGATAGGACTTTCCCAGA Chr12:32585825..32585844 59.62 50
downstream ENSMUSE00000433725 Chr12:32604516..32604642 CAGCTGGTGCTCTTGTGAAC Chr12:32604625..32604644 59.62 55
downstream ENSMUSE00000433720 Chr12:32605419..32605498 AGAAGCGAGCATGAGACCAT Chr12:32605449..32605468 59.98 50
downstream ENSMUSE00000434190 Chr12:32610510..32610656 CTTTGGACGGGTCTGTTCAT Chr12:32610659..32610678 59.97 50
downstream ENSMUSE00000433715 Chr12:32622042..32622495 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTCAGCCTTCTGGGTCAGAG Chr12:32345728..32345748 59.99 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AACTTGCCCAAGGGATCAGT Chr12:32345676..32345696 60.88 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000035933