Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI22770
Trapped Gene
4933406E20Rik (ENSMUSG00000006675)
Vector Insertion
Chr 9: 108484336 - 108485177
Public Clones IST14191A9 (tigm)
Private Clones OST285241 (lexicon)
Severity of mutation (?) Insertion after 48% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000583241 (Chr9:108485178..108485274 -)
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
ENSMUSE00000583241 (Chr9:108485178..108485274 -)
Downstram Exon
ENSMUSE00000583240 (Chr9:108484173..108484335 -)
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 ENSMUSE00000221368 Chr9:108499539..108499931 No primer for this exon
upstream ENSMUSE00000240493 Chr9:108499230..108499311 No primer for this exon
upstream ENSMUSE00000583242 Chr9:108485973..108486163 No primer for this exon
upstream ENSMUSE00000583241 Chr9:108485178..108485274 No primer for this exon

*** Putative Vector Insertion (Chr 9: 108484336 - 108485177) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000583240 Chr9:108484173..108484335 No primer for this exon
downstream ENSMUSE00000583239 Chr9:108483050..108483235 No primer for this exon
downstream ENSMUSE00000583238 Chr9:108482347..108482437 No primer for this exon
downstream ENSMUSE00000583237 Chr9:108482047..108482170 No primer for this exon
downstream ENSMUSE00000583236 Chr9:108481157..108481639 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ACCTTCCACTGTTCCATGCT Chr9:108485146..108485166 59.58 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ACCTTCCACTGTTCCATGCT Chr9:108485146..108485166 59.58 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 GAAATGGACGGTGGATGACT Chr9:108485231..108485251 59.79 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GAAATGGACGGTGGATGACT Chr9:108485231..108485251 59.79 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000006675