Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20682
Trapped Gene
Zbtb38 (ENSMUSG00000040433)
Vector Insertion
Chr 9: 96618729 - 96631710
Public Clones IST14735B4 (tigm) IST11556B9 (tigm) IST11811F4 (tigm) IST12982G6 (tigm)
IST15100F4 (tigm) IST14566D11 (tigm) IST13609A11 (tigm) IST13044D11 (tigm)
IST14313D8 (tigm) IST11996E3 (tigm) IST11811F4 (tigm) IST14623A10 (tigm)
IST14332C4 (tigm)
Private Clones OST354931 (lexicon) OST286211 (lexicon) OST258364 (lexicon) OST50438 (lexicon)
OST34056 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000583560 (Chr9:96631711..96632094 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CTCGGCGTATGATTTTTGGT Chr9:96631836..96631855 59.96 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000583560 (Chr9:96631711..96632094 -)
Downstram Exon
ENSMUSE00000425871 (Chr9:96618629..96618728 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CTCGGCGTATGATTTTTGGT Chr9:96631836..96631855 59.96 45 TCACTCGGAAATCCTTGGTT Chr9:96618657..96618676 59.53 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000583560 Chr9:96631711..96632094 CTCGGCGTATGATTTTTGGT Chr9:96631836..96631855 59.96 45

*** Putative Vector Insertion (Chr 9: 96618729 - 96631710) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000425871 Chr9:96618629..96618728 TCACTCGGAAATCCTTGGTT Chr9:96618657..96618676 59.53 45
downstream ENSMUSE00000583559 Chr9:96585842..96589448 TTCGAAGTGAGATGCTGGTG Chr9:96586395..96586414 59.98 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCGAGCGTCTTGTTATGCTA Chr9:96625734..96625754 59.09 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCGAGCGTCTTGTTATGCTA Chr9:96625734..96625754 59.09 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ATGTGAGGAGGAGGGGAAAA Chr9:96626054..96626074 60.82 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 ATGTGAGGAGGAGGGGAAAA Chr9:96626054..96626074 60.82 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040433