Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20585
Trapped Gene
Capn5 (ENSMUSG00000035547)
Vector Insertion
Chr 7: 105310425 - 105310621
Public Clones not available
Private Clones OST357916 (lexicon) OST289226 (lexicon) OST287478 (lexicon) OST237457 (lexicon)
OST237271 (lexicon) OST226367 (lexicon) OST225677 (lexicon) OST218369 (lexicon)
OST190763 (lexicon) OST179899 (lexicon) OST169687 (lexicon) OST130377 (lexicon)
OST112071 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000458972 (Chr7:105310426..105310620 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CACCGACGACTCCCTTTACT Chr7:105310470..105310489 59.21 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000458972 (Chr7:105310426..105310620 -)
Downstram Exon
ENSMUSE00000716773 (Chr7:105310426..105310620 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CACCGACGACTCCCTTTACT Chr7:105310470..105310489 59.21 55 CTTCAGCGCCGAGTAGTTCT Chr7:105310518..105310537 59.78 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000514708 Chr7:105326554..105326761 TATCATCTCCCCGCAGAGTC Chr7:105326649..105326668 60.18 55
upstream ENSMUSE00000672158 Chr7:105310786..105310852 GTGCTTCACTCCGTGTCCTC Chr7:105310801..105310820 60.87 60
upstream ENSMUSE00000458972 Chr7:105310426..105310620 CACCGACGACTCCCTTTACT Chr7:105310470..105310489 59.21 55
upstream ENSMUSE00000716773 Chr7:105310426..105310620 CACCGACGACTCCCTTTACT Chr7:105310470..105310489 59.21 55

*** Putative Vector Insertion (Chr 7: 105310425 - 105310621) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000497631 Chr7:105300322..105300453 CTGATGCCATCTACGAAGAGC Chr7:105300391..105300411 59.99 52.38
downstream ENSMUSE00000268550 Chr7:105284270..105284478 GACGATTACGTCCACCCACT Chr7:105284346..105284365 59.85 55
downstream ENSMUSE00000268542 Chr7:105281343..105281535 CCTCTTAGCCTCGTCAGTGG Chr7:105281387..105281406 60.01 60
downstream ENSMUSE00000268535 Chr7:105280186..105280379 GGGTTCCTCAGACGGATCAT Chr7:105280203..105280222 61.26 55
downstream ENSMUSE00000268529 Chr7:105279701..105279778 GCTCACTTTCTGCCATTCCT Chr7:105279732..105279751 59.43 50
downstream ENSMUSE00000268524 Chr7:105277754..105277949 GTGTTAATCAGGCGGCATTT Chr7:105277865..105277884 59.97 45
downstream ENSMUSE00000268515 Chr7:105276983..105277105 CGCTGCTGGATACTGATCAAC Chr7:105277028..105277048 60.81 52.38
downstream ENSMUSE00000268508 Chr7:105274756..105274952 CATACGGTATTGGCGGTTCT Chr7:105274904..105274923 59.85 50
downstream ENSMUSE00000268502 Chr7:105274339..105274454 AGGGTAGCCACAGAGGGAAC Chr7:105274375..105274394 60.51 60
downstream ENSMUSE00000268497 Chr7:105273752..105273888 GAGCCAGCTTCTTGCGATAG Chr7:105273747..105273766 60.26 55
downstream ENSMUSE00000672157 Chr7:105272171..105272565 GGTCACACAGTGGGTCAGTG Chr7:105272233..105272252 60.04 60
downstream ENSMUSE00000469208 Chr7:105270076..105272565 GCAGACGCTCAACAAAATGA Chr7:105271167..105271186 59.99 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGTGGCTGATGGTCTTCTTG Chr7:105310635..105310655 59.83 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGTGGCTGATGGTCTTCTTG Chr7:105310635..105310655 59.83 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000035547