Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28658
Trapped Gene
Lgals9 (ENSMUSG00000001123)
Vector Insertion
Chr 11: 78781536 - 78783215
Public Clones IST12411B1 (tigm)
Private Clones OST24286 (lexicon)
Severity of mutation (?) Insertion after 50% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000676168 (Chr11:78783216..78783305 -)
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
ENSMUSE00000676168 (Chr11:78783216..78783305 -)
Downstram Exon
ENSMUSE00000281922 (Chr11:78781500..78781535 -)
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 ENSMUSE00000489086 Chr11:78798280..78798333 No primer for this exon
upstream ENSMUSE00000676171 Chr11:78798280..78798353 No primer for this exon
upstream ENSMUSE00000109688 Chr11:78790115..78790203 No primer for this exon
upstream ENSMUSE00000109693 Chr11:78786490..78786691 No primer for this exon
upstream ENSMUSE00000281934 Chr11:78784819..78784929 No primer for this exon
upstream ENSMUSE00000513621 Chr11:78783216..78783308 No primer for this exon
upstream ENSMUSE00000676168 Chr11:78783216..78783305 No primer for this exon

*** Putative Vector Insertion (Chr 11: 78781536 - 78783215) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000281922 Chr11:78781500..78781535 No primer for this exon
downstream ENSMUSE00000109691 Chr11:78780946..78780996 No primer for this exon
downstream ENSMUSE00000109686 Chr11:78780379..78780420 No primer for this exon
downstream ENSMUSE00000109683 Chr11:78779500..78779588 No primer for this exon
downstream ENSMUSE00000109681 Chr11:78779194..78779356 No primer for this exon
downstream ENSMUSE00000510955 Chr11:78776897..78777043 No primer for this exon
downstream ENSMUSE00000676170 Chr11:78776485..78777043 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTTTGGCCTGGAGATTCAAA Chr11:78783183..78783203 60.05 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTTTGGCCTGGAGATTCAAA Chr11:78783183..78783203 60.05 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TCCAGCATGTCTTCTCCACA Chr11:78783271..78783291 60.4 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TCCAGCATGTCTTCTCCACA Chr11:78783271..78783291 60.4 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000001123