Tools for the biologist enabling optimized use of gene trap clones

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

UniTrap UNI16679
Trapped Gene
Cops2 (ENSMUSG00000027206)
Vector Insertion
Chr 2: 125675590 - 125684671
Public Clones IST14556F5 (tigm)
Private Clones OST455963 (lexicon) OST240382 (lexicon) OST92389 (lexicon)
Severity of mutation (?) Insertion after 4% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000166989 (Chr2:125684672..125684737 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGATGATTTCATGTGCGATG Chr2:125684692..125684711 59.89 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000166989 (Chr2:125684672..125684737 -)
Downstram Exon
ENSMUSE00000324768 (Chr2:125675476..125675589 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGATGATTTCATGTGCGATG Chr2:125684692..125684711 59.89 45 AAATCCACATTGGGCTCAGA Chr2:125675527..125675546 60.46 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000166989 Chr2:125684672..125684737 GGATGATTTCATGTGCGATG Chr2:125684692..125684711 59.89 45
upstream ENSMUSE00000684023 Chr2:125684672..125684775 GGATGATTTCATGTGCGATG Chr2:125684692..125684711 59.89 45
upstream ENSMUSE00000684029 Chr2:125684672..125684875 GGATGATTTCATGTGCGATG Chr2:125684692..125684711 59.89 45

*** Putative Vector Insertion (Chr 2: 125675590 - 125684671) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000324768 Chr2:125675476..125675589 AAATCCACATTGGGCTCAGA Chr2:125675527..125675546 60.46 45
downstream ENSMUSE00000324763 Chr2:125673943..125674020 GCTTTGAATCCCCATTCTCC Chr2:125673955..125673974 60.78 50
downstream ENSMUSE00000166987 Chr2:125670546..125670671 TGGTGACTGCACTCCGAATA Chr2:125670583..125670602 60.26 50
downstream ENSMUSE00000166983 Chr2:125668358..125668447 No primer for this exon
downstream ENSMUSE00000684042 Chr2:125668358..125668468 CCTGCAGTAAATCCATCTGACA Chr2:125668410..125668431 60.13 45.46
downstream ENSMUSE00000166984 Chr2:125668169..125668246 No primer for this exon
downstream ENSMUSE00000684022 Chr2:125666204..125666234 No primer for this exon
downstream ENSMUSE00000166979 Chr2:125666060..125666234 CCCATGATTAGTGGGTGAGG Chr2:125666049..125666068 60.19 55
downstream ENSMUSE00000166980 Chr2:125665042..125665220 TCTTGGGCTTCCTGATTCAT Chr2:125665098..125665117 59.63 45
downstream ENSMUSE00000684035 Chr2:125664890..125664937 No primer for this exon
downstream ENSMUSE00000166986 Chr2:125664885..125664937 No primer for this exon
downstream ENSMUSE00000166982 Chr2:125661878..125661975 TCATCCATGATGTTGCTGTG Chr2:125661882..125661901 59.03 45
downstream ENSMUSE00000684033 Chr2:125661878..125661980 TCATCCATGATGTTGCTGTG Chr2:125661882..125661901 59.03 45
downstream ENSMUSE00000166990 Chr2:125660490..125660572 No primer for this exon
downstream ENSMUSE00000166988 Chr2:125659460..125659518 ATCCAGTATGCACTGCACCA Chr2:125659440..125659459 60.14 50
downstream ENSMUSE00000684021 Chr2:125657335..125658073 CTGCTTGAGCCCTAGGTGAC Chr2:125657343..125657362 60.01 60
downstream ENSMUSE00000410580 Chr2:125656040..125658073 CTGCTTGAGCCCTAGGTGAC Chr2:125657343..125657362 60.01 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TTTCATGTGCGATGATGAGG Chr2:125684684..125684704 60.63 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTCACGTGACTGGGAAAACC Chr2:125684604..125684624 60.93 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 GTGGGAGGAGGCTGTCTCTA Chr2:125684757..125684777 59.4 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GTGGGAGGAGGCTGTCTCTA Chr2:125684757..125684777 59.4 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000027206