Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI770
Trapped Gene
Klf3 (ENSMUSG00000029178)
Vector Insertion
Chr 5: 65195031 - 65207973
Public Clones (sanger) CH0516 (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) P138B04 (ggtc) P123B02 (ggtc) E125B12 (ggtc)
D135B09 (ggtc) D034H10 (ggtc) P133H03 (ggtc) P096G07 (ggtc) E044B03 (ggtc)
D042G10 (ggtc) D028B06 (ggtc) P141B04 (ggtc) P128G01 (ggtc) E139C10 (ggtc)
D143H10 (ggtc) D039B11 (ggtc) D017A12 (ggtc) P135F03 (ggtc) P123B02 (ggtc)
E078F05 (ggtc) D064A07 (ggtc) D034H10 (ggtc) M032E02 (ggtc) P133H03 (ggtc)
M123H09 (ggtc) D154A04 (ggtc) D040F11 (ggtc) D022D07 (ggtc) (ggtc)
P141B04 (ggtc) P124D07 (ggtc) E129A11 (ggtc) D139D10 (ggtc) D035A03 (ggtc)
D005H02 (ggtc) P135F03 (ggtc) P100F05 (ggtc) E044B03 (ggtc) D047E07 (ggtc)
D031B08 (ggtc) P128G01 (ggtc) H009B06 (ggtc) D154A04 (ggtc) D040F11 (ggtc)
D020C04 (ggtc) PST17489-NR (escells) PST25512-NR (escells) PSTVU01.HM16 (vanderbilt)
IST11188G2 (tigm) IST14207F11 (tigm) IST15021F2 (tigm) IST14191G2 (tigm)
IST14524E12 (tigm) IST10888G2 (tigm) IST10466A3 (tigm) IST15021F2 (tigm)
IST11272D10 (tigm) IST10091D1 (tigm)
Private Clones OST472465 (lexicon) OST459752 (lexicon) OST413277 (lexicon) OST402565 (lexicon)
OST389366 (lexicon) OST367537 (lexicon) OST325270 (lexicon) OST321118 (lexicon)
OST320973 (lexicon) OST317291 (lexicon) OST305264 (lexicon) OST304387 (lexicon)
OST303304 (lexicon) OST303082 (lexicon) OST298189 (lexicon) OST287720 (lexicon)
OST280798 (lexicon) OST271935 (lexicon) OST264581 (lexicon) OST263381 (lexicon)
OST259261 (lexicon) OST258279 (lexicon) OST257665 (lexicon) OST253362 (lexicon)
OST252078 (lexicon) OST247309 (lexicon) OST237434 (lexicon) OST218006 (lexicon)
OST208400 (lexicon) OST196394 (lexicon) OST195741 (lexicon) OST194535 (lexicon)
OST188170 (lexicon) OST183614 (lexicon) OST179545 (lexicon) OST172198 (lexicon)
OST170234 (lexicon) OST170219 (lexicon) OST170051 (lexicon) OST165705 (lexicon)
OST143625 (lexicon) OST137083 (lexicon) OST131897 (lexicon) OST119087 (lexicon)
OST118802 (lexicon) OST79563 (lexicon) OST55084 (lexicon) OST52150 (lexicon)
OST45295 (lexicon) OST41153 (lexicon) OST39917 (lexicon) OST38020 (lexicon)
OST35867 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000394739 (Chr5:65194628..65195030 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTCATGTGACTGCCCAGAGTT Chr5:65194780..65194800 60.17 52.38 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000394739 (Chr5:65194628..65195030 +)
Downstram Exon
ENSMUSE00000186617 (Chr5:65207974..65208069 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTCATGTGACTGCCCAGAGTT Chr5:65194780..65194800 60.17 52.38 CTGCTTGACAGGGACTGGAT Chr5:65208048..65208067 60.26 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000394739 Chr5:65194628..65195030 GTCATGTGACTGCCCAGAGTT Chr5:65194780..65194800 60.17 52.38

*** Putative Vector Insertion (Chr 5: 65195031 - 65207973) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000186617 Chr5:65207974..65208069 CTGCTTGACAGGGACTGGAT Chr5:65208048..65208067 60.26 55
downstream ENSMUSE00000186613 Chr5:65213113..65213596 ATAAAAGGAACGGGCTGGAC Chr5:65213522..65213541 60.32 50
downstream ENSMUSE00000186619 Chr5:65214118..65214268 GGGTTCATTAAAGGGGGTGA Chr5:65214241..65214260 60.91 50
downstream ENSMUSE00000186625 Chr5:65218349..65218509 CTGTGTATCCTGCGCTTCCT Chr5:65218438..65218457 60.42 55
downstream ENSMUSE00000186622 Chr5:65220216..65221367 ACCCTCTCGGTATCCAGCTT Chr5:65221268..65221287 60.1 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTAGACCCAGGGGATGGAAA Chr5:65201036..65201056 61.08 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGTCCAGATAGGCTTGGAAAA Chr5:65201031..65201052 59.69 42.86 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029178