Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI26440
Trapped Gene
Zdhhc21 (ENSMUSG00000028403)
Vector Insertion
Chr 4: 82500020 - 82505393
Public Clones not available
Private Clones OST117985 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000632167 (Chr4:82505394..82505446 -)
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
ENSMUSE00000632167 (Chr4:82505394..82505446 -)
Downstram Exon
ENSMUSE00000450338 (Chr4:82499873..82500019 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon GCCTCCCTTCAATACCAGTTC Chr4:82499966..82499986 59.95 52.38

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000672480 Chr4:82505823..82505862 No primer for this exon
upstream ENSMUSE00000632167 Chr4:82505394..82505446 No primer for this exon

*** Putative Vector Insertion (Chr 4: 82500020 - 82505393) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000450338 Chr4:82499873..82500019 GCCTCCCTTCAATACCAGTTC Chr4:82499966..82499986 59.95 52.38
downstream ENSMUSE00000317307 Chr4:82493447..82493643 AAAGACAATCAAGCCCATGC Chr4:82493513..82493532 60.08 45
downstream ENSMUSE00000717454 Chr4:82493447..82493643 AAAGACAATCAAGCCCATGC Chr4:82493513..82493532 60.08 45
downstream ENSMUSE00000178875 Chr4:82490008..82490106 AGGCAACCAGGCAAAATATG Chr4:82490049..82490068 59.96 45
downstream ENSMUSE00000178872 Chr4:82484180..82484291 CATCAGGTTGCACTTGTTGC Chr4:82484229..82484248 60.31 50
downstream ENSMUSE00000178871 Chr4:82481350..82481488 AGCCAATGGTTGTCTTCACC Chr4:82481431..82481450 59.97 50
downstream ENSMUSE00000178874 Chr4:82466234..82466350 CTCATGGCGAACAACAAAGA Chr4:82466305..82466324 59.84 45
downstream ENSMUSE00000178870 Chr4:82452917..82452960 No primer for this exon
downstream ENSMUSE00000672479 Chr4:82452113..82452365 CCAACGAGTGCCAAAAACTT Chr4:82452286..82452305 60.15 45
downstream ENSMUSE00000178869 Chr4:82450856..82452365 TCAGAGAGCTGCTCCTAGCC Chr4:82451676..82451695 60 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CATGCAGCATCCCTCCTAAT Chr4:82505338..82505358 60.06 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGGGTGCATTGAAACCATT Chr4:82505390..82505410 60.76 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028403