Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI12489
Trapped Gene
Arl15 (ENSMUSG00000042348)
Vector Insertion
Chr 13: 114712600 - 114724271
Public Clones A023B02 (ggtc)
Private Clones OST223615 (lexicon) OST181850 (lexicon)
Severity of mutation (?) Insertion after 32% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000568635 (Chr13:114712455..114712599 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CGCCCTGAATATGACTTGGT Chr13:114712494..114712513 59.96 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000568635 (Chr13:114712455..114712599 +)
Downstram Exon
ENSMUSE00000307076 (Chr13:114724272..114724331 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CGCCCTGAATATGACTTGGT Chr13:114712494..114712513 59.96 50 CATTCAAAACGGCATTCTGG Chr13:114724319..114724338 61.39 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000679583 Chr13:114584767..114584904 CGGATAACTGAGGCGTTTCT Chr13:114584869..114584888 59.34 50
upstream ENSMUSE00000568635 Chr13:114712455..114712599 CGCCCTGAATATGACTTGGT Chr13:114712494..114712513 59.96 50

*** Putative Vector Insertion (Chr 13: 114712600 - 114724271) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000307076 Chr13:114724272..114724331 CATTCAAAACGGCATTCTGG Chr13:114724319..114724338 61.39 45
downstream ENSMUSE00000307071 Chr13:114757790..114757998 CTTGGTAGTAGCGGCTCCAG Chr13:114757834..114757853 60.03 60
downstream ENSMUSE00000568639 Chr13:114944912..114947663 TGTAAAGCATCAGGCGTCAG Chr13:114947135..114947154 60.01 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTCTGGAGTAATCGCCTTGC Chr13:114715643..114715663 59.84 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TAATTGTCGGGACGTGACTG Chr13:114715639..114715659 59.57 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000042348