Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI11542
Trapped Gene
Snrpd2 (ENSMUSG00000040824)
Vector Insertion
Chr 7: 19735244 - 19736566
Public Clones P022E05 (ggtc)
Private Clones OST472521 (lexicon)
Severity of mutation (?) Insertion after 1% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000235330 (Chr7:19735187..19735243 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GATCTGCGAGCGAAACCTAC Chr7:19735219..19735238 59.99 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000235330 (Chr7:19735187..19735243 +)
Downstram Exon
ENSMUSE00000518660 (Chr7:19736567..19736746 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GATCTGCGAGCGAAACCTAC Chr7:19735219..19735238 59.99 55 TGTTGTTCTTGACCGACTGC Chr7:19736685..19736704 59.88 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000235330 Chr7:19735187..19735243 GATCTGCGAGCGAAACCTAC Chr7:19735219..19735238 59.99 55

*** Putative Vector Insertion (Chr 7: 19735244 - 19736566) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000518660 Chr7:19736567..19736746 TGTTGTTCTTGACCGACTGC Chr7:19736685..19736704 59.88 50
downstream ENSMUSE00000235315 Chr7:19737825..19738075 TCTTGGGAACCTCAGTCCAC Chr7:19737883..19737902 60.09 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTGGAGATGGAGGTGGACAG Chr7:19735274..19735294 60.53 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGGAGATGGAGGTGGACAG Chr7:19735274..19735294 60.53 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040824