Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI23148
Trapped Gene
Polr3c (ENSMUSG00000028099)
Vector Insertion
Chr 3: 96527976 - 96529756
Public Clones not available
Private Clones OST275012 (lexicon)
Severity of mutation (?) Insertion after 9% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000176081 (Chr3:96529757..96529922 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TAATTGCCCACGACACAAAA Chr3:96529772..96529791 59.97 40 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000176081 (Chr3:96529757..96529922 -)
Downstram Exon
ENSMUSE00000176076 (Chr3:96527720..96527975 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TAATTGCCCACGACACAAAA Chr3:96529772..96529791 59.97 40 GGAGCTCCTCAACAATCAGC Chr3:96527770..96527789 59.96 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000176077 Chr3:96531272..96531388 GCCTGGATGGTGCTCTACTT Chr3:96531362..96531381 59.31 55
upstream ENSMUSE00000176081 Chr3:96529757..96529922 TAATTGCCCACGACACAAAA Chr3:96529772..96529791 59.97 40

*** Putative Vector Insertion (Chr 3: 96527976 - 96529756) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000176076 Chr3:96527720..96527975 GGAGCTCCTCAACAATCAGC Chr3:96527770..96527789 59.96 55
downstream ENSMUSE00000176073 Chr3:96527437..96527622 AGTATCTGCCAGTCGCACAA Chr3:96527542..96527561 59.47 50
downstream ENSMUSE00000247775 Chr3:96526463..96526548 TGGGCTCTCCAGTAGCATCT Chr3:96526476..96526495 59.97 55
downstream ENSMUSE00000176078 Chr3:96523384..96523488 AAATCCCATCGTCTGGTGAG Chr3:96523445..96523464 59.93 50
downstream ENSMUSE00000176074 Chr3:96523157..96523249 GGACAGCGGCTGAGTATAGG Chr3:96523144..96523163 59.86 60
downstream ENSMUSE00000176085 Chr3:96520590..96520670 CAGCAGCGTGAGGTACTGAT Chr3:96520580..96520599 59.06 55
downstream ENSMUSE00000176084 Chr3:96520352..96520403 ACTGTCGCCAGACTTTCCAA Chr3:96520352..96520371 60.83 50
downstream ENSMUSE00000176086 Chr3:96519557..96519617 CAGTGGCTAGGGACGCTAAT Chr3:96519563..96519582 59.36 55
downstream ENSMUSE00000176075 Chr3:96519043..96519193 ATATCCTGGCACAGCGAGAC Chr3:96519146..96519165 60.25 55
downstream ENSMUSE00000176079 Chr3:96518182..96518283 TGGTCTGGCGTCTTAGGAAT Chr3:96518239..96518258 59.69 50
downstream ENSMUSE00000176072 Chr3:96518018..96518067 TTCAAACTGTCGCCGTTCTA Chr3:96518010..96518029 59.46 45
downstream ENSMUSE00000176082 Chr3:96517404..96517553 ACGTTGCGTTTCAGTGTCTC Chr3:96517388..96517407 58.94 50
downstream ENSMUSE00000176083 Chr3:96515451..96515983 TCTTCTGGGTCACTGCCTCT Chr3:96515871..96515890 59.99 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AATTGCCCACGACACAAAAG Chr3:96529769..96529789 60.92 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector

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