Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16268
Trapped Gene
Bpnt1 (ENSMUSG00000026617)
Vector Insertion
Chr 1: 187165207 - 187169193
Public Clones not available
Private Clones OST464353 (lexicon) OST321561 (lexicon) OST319711 (lexicon) OST224071 (lexicon)
OST219210 (lexicon) OST200686 (lexicon) OST184741 (lexicon) OST184531 (lexicon)
OST178086 (lexicon)
Severity of mutation (?) Insertion after 24% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000161070 (Chr1:187165102..187165206 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCTTGGTGCAGATGAGCATA Chr1:187165136..187165155 59.98 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000161070 (Chr1:187165102..187165206 +)
Downstram Exon
ENSMUSE00000161064 (Chr1:187169194..187169301 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCTTGGTGCAGATGAGCATA Chr1:187165136..187165155 59.98 50 CCCGTCTTCAATCAGCTCTT Chr1:187169241..187169260 59.43 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000403926 Chr1:187156028..187156142 ATTGGACCAGTGGACTTGGA Chr1:187156059..187156078 60.36 50
upstream ENSMUSE00000686071 Chr1:187156059..187156142 ATTGGACCAGTGGACTTGGA Chr1:187156059..187156078 60.36 50
upstream ENSMUSE00000161066 Chr1:187161985..187162111 CTATCGCTCAAAAGGCAGGA Chr1:187162041..187162060 60.48 50
upstream ENSMUSE00000706554 Chr1:187161992..187162111 CTATCGCTCAAAAGGCAGGA Chr1:187162041..187162060 60.48 50
upstream ENSMUSE00000161070 Chr1:187165102..187165206 GCTTGGTGCAGATGAGCATA Chr1:187165136..187165155 59.98 50

*** Putative Vector Insertion (Chr 1: 187165207 - 187169193) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000161064 Chr1:187169194..187169301 CCCGTCTTCAATCAGCTCTT Chr1:187169241..187169260 59.43 50
downstream ENSMUSE00000161060 Chr1:187170554..187170602 CTAAGGGGTCAACCCAAACC Chr1:187170581..187170600 60.58 55
downstream ENSMUSE00000161058 Chr1:187172623..187172714 AATACGGCTGGTTGATGATG Chr1:187172706..187172725 58.45 45
downstream ENSMUSE00000161056 Chr1:187176061..187176258 TGGTTGCTATGGGATCTGGT Chr1:187176191..187176210 60.34 50
downstream ENSMUSE00000161054 Chr1:187177836..187177941 AGAAGCTTTGCCTTCGATCA Chr1:187177868..187177887 60.1 45
downstream ENSMUSE00000344053 Chr1:187180357..187181656 TTCCCATGGATGTCTGTCAA Chr1:187180384..187180403 59.89 45
downstream ENSMUSE00000686057 Chr1:187180357..187180660 TCTGGAACATGGCTTGCATA Chr1:187180480..187180499 60.22 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAATCGCCTTGCAGCACATC Chr1:187168258..187168278 62.25 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CGAAGCTGACCATCATAGGG Chr1:187168182..187168202 60.62 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000026617