Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI18575
Trapped Gene
Plcd1 (ENSMUSG00000010660)
Vector Insertion
Chr 9: 118990269 - 118993707
Public Clones (ggtc) (ggtc) CMHD-GT_259A11-3 (cmhd) IST14424F1 (tigm) IST12357C9 (tigm)
IST12853H3 (tigm) IST11519A4 (tigm) IST13508H4 (tigm) IST12546H3 (tigm)
Private Clones OST420397 (lexicon) OST188360 (lexicon) OST74853 (lexicon)
Severity of mutation (?) Insertion after 9% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000270426 (Chr9:118993708..118993872 -)
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
ENSMUSE00000270426 (Chr9:118993708..118993872 -)
Downstram Exon
ENSMUSE00000270408 (Chr9:118990040..118990268 -)
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 ENSMUSE00000356709 Chr9:119002476..119002620 No primer for this exon
upstream ENSMUSE00000270426 Chr9:118993708..118993872 No primer for this exon

*** Putative Vector Insertion (Chr 9: 118990269 - 118993707) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000270408 Chr9:118990040..118990268 No primer for this exon
downstream ENSMUSE00000270389 Chr9:118985202..118985331 No primer for this exon
downstream ENSMUSE00000134404 Chr9:118984882..118985113 No primer for this exon
downstream ENSMUSE00000134401 Chr9:118983991..118984192 No primer for this exon
downstream ENSMUSE00000134398 Chr9:118983754..118983898 No primer for this exon
downstream ENSMUSE00000134400 Chr9:118983528..118983677 No primer for this exon
downstream ENSMUSE00000134407 Chr9:118983283..118983441 No primer for this exon
downstream ENSMUSE00000134403 Chr9:118982881..118983040 No primer for this exon
downstream ENSMUSE00000134397 Chr9:118982574..118982690 No primer for this exon
downstream ENSMUSE00000134406 Chr9:118981593..118981771 No primer for this exon
downstream ENSMUSE00000134405 Chr9:118981368..118981500 No primer for this exon
downstream ENSMUSE00000134399 Chr9:118981141..118981290 No primer for this exon
downstream ENSMUSE00000352230 Chr9:118980648..118981005 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ACTTAATCGCCTTGCAGCAC Chr9:118993639..118993659 60.42 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GAGGGACCTGAAGATGGTGA Chr9:118993670..118993690 60.05 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ACACGGTGGAGAAAGTGACAT Chr9:118993894..118993915 59.49 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CTGGAAGGTGGGGTCTTTCT Chr9:118993825..118993845 60.48 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000010660