Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI4031
Trapped Gene
Gpbp1 (ENSMUSG00000032745)
Vector Insertion
Chr 13: 112279925 - 112280048
Public Clones AR1195 (sanger) AQ0490 (sanger) RRF014 (baygenomics) RRO334 (baygenomics)
P006B04 (ggtc) W192C01 (ggtc)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000120497 (Chr13:112279926..112280047 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGCAAAAGGGGATTATTCAA Chr13:112280000..112280019 58.88 40 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000120497 (Chr13:112279926..112280047 -)
Downstram Exon
ENSMUSE00000610285 (Chr13:112279926..112280236 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGCAAAAGGGGATTATTCAA Chr13:112280000..112280019 58.88 40 CAATGTTCTGGGCCAAGTCT Chr13:112280053..112280072 60.11 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000120497 Chr13:112279926..112280047 GGCAAAAGGGGATTATTCAA Chr13:112280000..112280019 58.88 40
upstream ENSMUSE00000610285 Chr13:112279926..112280236 GGGACTGAGACTGGTTGTGG Chr13:112280033..112280052 60.56 60

*** Putative Vector Insertion (Chr 13: 112279925 - 112280048) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000316427 Chr13:112277631..112278578 TCATACGCCAAATTCAACCA Chr13:112278536..112278555 59.93 40
downstream ENSMUSE00000706092 Chr13:112277631..112278123 TGCTGGTGTGAAAATGGAAC Chr13:112278001..112278020 59.55 45
downstream ENSMUSE00000316419 Chr13:112257059..112257178 AAGGCTTCAACACCTCATGG Chr13:112257130..112257149 60.11 50
downstream ENSMUSE00000709405 Chr13:112257059..112257178 AAGGCTTCAACACCTCATGG Chr13:112257130..112257149 60.11 50
downstream ENSMUSE00000316480 Chr13:112243581..112243704 GGACGTCCAATACCAGAATCA Chr13:112243567..112243587 59.81 47.62
downstream ENSMUSE00000441336 Chr13:112243232..112243455 TGCTACGAGAACGGGAATTT Chr13:112243323..112243342 59.71 45
downstream ENSMUSE00000316470 Chr13:112239141..112239207 AAACACCCGCAGCTAAAGAT Chr13:112239122..112239141 58.86 45
downstream ENSMUSE00000316408 Chr13:112238104..112238163 GTGTGTGTCTGGGCGTGTAG Chr13:112238120..112238139 60.23 60
downstream ENSMUSE00000369274 Chr13:112230840..112231024 CCTGCTACTGGGAATCCAGA Chr13:112230906..112230925 60.21 55
downstream ENSMUSE00000316459 Chr13:112229312..112229452 TTCTTGGCCGTTGACTTAAAA Chr13:112229321..112229341 59.74 38.1
downstream ENSMUSE00000316453 Chr13:112228165..112228332 GGCGAAGAAGAATTTGAACG Chr13:112228285..112228304 59.82 45
downstream ENSMUSE00000679708 Chr13:112226605..112226792 TGTGGAAAAGTCGAAGAACG Chr13:112226622..112226641 58.9 45
downstream ENSMUSE00000568902 Chr13:112223756..112223858 GGGAGCACATGTTTCATCATT Chr13:112223779..112223799 59.81 42.86
downstream ENSMUSE00000679704 Chr13:112216369..112216859 ATGTTCAACACAGCCCAACA Chr13:112216501..112216520 60.01 45
downstream ENSMUSE00000610286 Chr13:112216140..112216859 CACTCTGCTCCGGTTTTAGC Chr13:112216158..112216177 60.01 55
downstream ENSMUSE00000568901 Chr13:112215890..112216859 CACTCTGCTCCGGTTTTAGC Chr13:112216158..112216177 60.01 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGGACTGAGACTGGTTGTGG Chr13:112280031..112280051 60.56 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGGACTGAGACTGGTTGTGG Chr13:112280031..112280051 60.56 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032745