Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI14810
Trapped Gene
Hnrnpd (ENSMUSG00000000568)
Vector Insertion
Chr 5: 100391533 - 100392897
Public Clones PST14277-NR (escells) PST13284-NL (escells) PST14770-NR (escells) PST2316-NR (escells)
PST14277-NL (escells)
Private Clones OST349615 (lexicon)
Severity of mutation (?) Insertion after 93% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000188013 (Chr5:100392750..100392896 -)
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
ENSMUSE00000188013 (Chr5:100392750..100392896 -)
Downstram Exon
ENSMUSE00000542064 (Chr5:100391534..100391631 -)
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 ENSMUSE00000484747 Chr5:100407411..100407957 No primer for this exon
upstream ENSMUSE00000455342 Chr5:100405553..100405609 No primer for this exon
upstream ENSMUSE00000455322 Chr5:100396238..100396406 No primer for this exon
upstream ENSMUSE00000188023 Chr5:100395041..100395202 No primer for this exon
upstream ENSMUSE00000188026 Chr5:100393689..100393820 No primer for this exon
upstream ENSMUSE00000188019 Chr5:100393003..100393102 No primer for this exon
upstream ENSMUSE00000188013 Chr5:100392750..100392896 No primer for this exon
upstream ENSMUSE00000542064 Chr5:100391534..100391631 No primer for this exon

*** Putative Vector Insertion (Chr 5: 100391533 - 100392897) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000482498 Chr5:100390028..100390352 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGCTGATCTGACTTTAGTGAACC Chr5:100392911..100392934 58.53 43.48 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGCTGATCTGACTTTAGTGAACC Chr5:100392911..100392934 58.53 43.48 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TTGTGCTAATCGCCTTGCAG Chr5:100392684..100392704 62.38 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TTTACTTTGTGCCGTGACTGG Chr5:100392689..100392710 61.09 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000000568