Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI17168
Trapped Gene
Nfix (ENSMUSG00000001911)
Vector Insertion
Chr 8: 87245718 - 87247626
Public Clones not available
Private Clones OST448247 (lexicon) OST433747 (lexicon) OST329398 (lexicon) OST310195 (lexicon)
OST148049 (lexicon) OST49060 (lexicon) OST49009 (lexicon) OST38748 (lexicon)
Severity of mutation (?) Insertion after 79% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000211773 (Chr8:87247627..87247749 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000211773 (Chr8:87247627..87247749 -)
Downstram Exon
ENSMUSE00000211774 (Chr8:87245542..87245717 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000639011 Chr8:87323897..87324239 No primer for this exon
upstream ENSMUSE00000606643 Chr8:87297253..87297295 No primer for this exon
upstream ENSMUSE00000681507 Chr8:87297253..87298268 No primer for this exon
upstream ENSMUSE00000720377 Chr8:87297253..87298268 No primer for this exon
upstream ENSMUSE00000415727 Chr8:87295683..87296238 No primer for this exon
upstream ENSMUSE00000606642 Chr8:87295683..87296214 No primer for this exon
upstream ENSMUSE00000264489 Chr8:87251804..87251866 No primer for this exon
upstream ENSMUSE00000264456 Chr8:87251504..87251578 No primer for this exon
upstream ENSMUSE00000264432 Chr8:87251023..87251143 No primer for this exon
upstream ENSMUSE00000338152 Chr8:87250368..87250504 No primer for this exon
upstream ENSMUSE00000681499 Chr8:87250368..87250501 No primer for this exon
upstream ENSMUSE00000211773 Chr8:87247627..87247749 No primer for this exon

*** Putative Vector Insertion (Chr 8: 87245718 - 87247626) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000211774 Chr8:87245542..87245717 No primer for this exon
downstream ENSMUSE00000415416 Chr8:87240040..87240187 No primer for this exon
downstream ENSMUSE00000606639 Chr8:87237665..87237756 No primer for this exon
downstream ENSMUSE00000606641 Chr8:87237665..87237756 No primer for this exon
downstream ENSMUSE00000681506 Chr8:87237604..87237610 No primer for this exon
downstream ENSMUSE00000681505 Chr8:87237335..87237339 No primer for this exon
downstream ENSMUSE00000606638 Chr8:87232525..87232576 No primer for this exon
downstream ENSMUSE00000635598 Chr8:87231498..87232576 No primer for this exon
downstream ENSMUSE00000681502 Chr8:87231498..87232576 No primer for this exon
downstream ENSMUSE00000681511 Chr8:87228611..87232576 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTCAGACCAGGTGAGAGATGG Chr8:87247614..87247635 59.7 57.14 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTCAGACCAGGTGAGAGATGG Chr8:87247614..87247635 59.7 57.14 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000001911