Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI26649
Trapped Gene
Snx3 (ENSMUSG00000019804)
Vector Insertion
Chr 10: 42245856 - 42252954
Public Clones not available
Private Clones OST105802 (lexicon) OST61509 (lexicon) OST27633 (lexicon) OST26628 (lexicon)
OST13734 (lexicon) OST7417 (lexicon)
Severity of mutation (?) Insertion after 41% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000576451 (Chr10:42245760..42245855 +)
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
ENSMUSE00000576451 (Chr10:42245760..42245855 +)
Downstram Exon
ENSMUSE00000098179 (Chr10:42252955..42253079 +)
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 ENSMUSE00000666427 Chr10:42221836..42222232 No primer for this exon
upstream ENSMUSE00000385950 Chr10:42222051..42222298 No primer for this exon
upstream ENSMUSE00000666425 Chr10:42222096..42222298 No primer for this exon
upstream ENSMUSE00000576451 Chr10:42245760..42245855 No primer for this exon

*** Putative Vector Insertion (Chr 10: 42245856 - 42252954) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000098179 Chr10:42252955..42253079 No primer for this exon
downstream ENSMUSE00000342318 Chr10:42254459..42255175 No primer for this exon
downstream ENSMUSE00000666424 Chr10:42254459..42255187 No primer for this exon
downstream ENSMUSE00000666426 Chr10:42254459..42254593 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATGCAAGCATCTTGGGAGTC Chr10:42248874..42248894 60.23 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATGCAAGCATCTTGGGAGTC Chr10:42248874..42248894 60.23 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000019804