Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI11858
Trapped Gene
Wipi2 (ENSMUSG00000029578)
Vector Insertion
Chr 5: 143114239 - 143131801
Public Clones (sanger) A070D02 (ggtc)
Private Clones OST151486 (lexicon)
Severity of mutation (?) Insertion after 12% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000190267 (Chr5:143114156..143114238 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCTGTGGATAAGCTGGAACAGA Chr5:143114205..143114226 59.88 45.46 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000190267 (Chr5:143114156..143114238 +)
Downstram Exon
ENSMUSE00000237147 (Chr5:143131802..143131971 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCTGTGGATAAGCTGGAACAGA Chr5:143114205..143114226 59.88 45.46 AGCTTTGAGGCTGACAATGG Chr5:143131878..143131897 60.4 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000534526 Chr5:143105547..143105786 GATCCTGAGTGTAGCGTGCTC Chr5:143105620..143105640 60.03 57.14
upstream ENSMUSE00000685373 Chr5:143105564..143105786 GATCCTGAGTGTAGCGTGCTC Chr5:143105620..143105640 60.03 57.14
upstream ENSMUSE00000190267 Chr5:143114156..143114238 TCTGTGGATAAGCTGGAACAGA Chr5:143114205..143114226 59.88 45.46

*** Putative Vector Insertion (Chr 5: 143114239 - 143131801) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000237147 Chr5:143131802..143131971 AGCTTTGAGGCTGACAATGG Chr5:143131878..143131897 60.4 50
downstream ENSMUSE00000237136 Chr5:143134146..143134242 GTACCTTCATGTCCCGGATG Chr5:143134209..143134228 60.19 55
downstream ENSMUSE00000190265 Chr5:143135019..143135116 CTCCCTGGATACGCCAAGTA Chr5:143135076..143135095 60.09 55
downstream ENSMUSE00000190261 Chr5:143135487..143135579 GGGATCATGTTTGCAGCTCT Chr5:143135509..143135528 60.23 50
downstream ENSMUSE00000190271 Chr5:143136979..143137049 AATGGAAAACACCCGAATCA Chr5:143137008..143137027 60.17 40
downstream ENSMUSE00000190264 Chr5:143138989..143139096 TTCCCTCACAGCCTCAAGTT Chr5:143139097..143139116 59.84 50
downstream ENSMUSE00000345837 Chr5:143140279..143140443 AGTAGCCAGTCCAGGTGGTG Chr5:143140316..143140335 60.17 60
downstream ENSMUSE00000190262 Chr5:143141377..143141484 GCCATCTGATGCTCCTACCA Chr5:143141422..143141441 61.18 55
downstream ENSMUSE00000237090 Chr5:143142048..143142205 CTGTGCCGTACGTCTGTGTT Chr5:143142136..143142155 59.82 55
downstream ENSMUSE00000685355 Chr5:143142048..143142145 CTGTGCCGTACGTCTGTGTT Chr5:143142136..143142155 59.82 55
downstream ENSMUSE00000190269 Chr5:143142814..143143488 TGTTCGCTGTCTTCATCCAG Chr5:143142901..143142920 59.98 50
downstream ENSMUSE00000685354 Chr5:143142814..143143441 TGTTCGCTGTCTTCATCCAG Chr5:143142901..143142920 59.98 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GATATAATCGCCTTGCAGCAC Chr5:143114286..143114307 59.72 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCATGTGTCTGCTGAAATGC Chr5:143117246..143117266 60.27 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029578