Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI23348
Trapped Gene
Gpbp1 (ENSMUSG00000032745)
Vector Insertion
Chr 13: 112243705 - 112257058
Public Clones IST14402F12 (tigm) IST14337E12 (tigm)
Private Clones OST262748 (lexicon) OST127740 (lexicon)
Severity of mutation (?) Insertion after 4% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000709405 (Chr13:112257059..112257178 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CATGAGGTGTTGAAGCCTTG Chr13:112257151..112257170 59.29 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000709405 (Chr13:112257059..112257178 -)
Downstram Exon
ENSMUSE00000316480 (Chr13:112243581..112243704 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CATGAGGTGTTGAAGCCTTG Chr13:112257151..112257170 59.29 50 GGACGTCCAATACCAGAATCA Chr13:112243567..112243587 59.81 47.62

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
upstream ENSMUSE00000316427 Chr13:112277631..112278578 TGGTTGAATTTGGCGTATGA Chr13:112278558..112278577 59.93 40
upstream ENSMUSE00000706092 Chr13:112277631..112278123 TCTTGTGCAGTCCTTTTGGA Chr13:112277635..112277654 59.42 45
upstream ENSMUSE00000316419 Chr13:112257059..112257178 CATGAGGTGTTGAAGCCTTG Chr13:112257151..112257170 59.29 50
upstream ENSMUSE00000709405 Chr13:112257059..112257178 CATGAGGTGTTGAAGCCTTG Chr13:112257151..112257170 59.29 50

*** Putative Vector Insertion (Chr 13: 112243705 - 112257058) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
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 CTGCCTTTCTGTCTGCCTCT Chr13:112251016..112251036 59.74 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTGCCTTTCTGTCTGCCTCT Chr13:112251016..112251036 59.74 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ATTAATCGCCTTGCAGCACA Chr13:112254110..112254130 61.69 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCTCATCGTGACTGGGAAAA Chr13:112254114..112254134 61.03 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032745