Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28026
Trapped Gene
Ttyh2 (ENSMUSG00000034714)
Vector Insertion
Chr 11: 114573153 - 114580442
Public Clones not available
Private Clones OST42142 (lexicon)
Severity of mutation (?) Insertion after 96% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000259170 (Chr11:114573074..114573152 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCAGGCCATACTCTTTGGTG Chr11:114573077..114573096 60.51 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000259170 (Chr11:114573074..114573152 +)
Downstram Exon
ENSMUSE00000646313 (Chr11:114580443..114582289 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCAGGCCATACTCTTTGGTG Chr11:114573077..114573096 60.51 55 TGGTCCCAGAACGTAGATCC Chr11:114580993..114581012 59.93 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000259295 Chr11:114536831..114536986 CTGCAGCGAGTAGACAGCAC Chr11:114536936..114536955 59.95 60
upstream ENSMUSE00000259283 Chr11:114547708..114547880 CCTCACCGTCTACCTGGTGT Chr11:114547764..114547783 60.03 60
upstream ENSMUSE00000259272 Chr11:114551553..114551664 GAAACAGCGAGACCAACGAT Chr11:114551579..114551598 60.26 50
upstream ENSMUSE00000259259 Chr11:114557903..114558123 CACCAGACTGCCTATGTGGA Chr11:114558095..114558114 59.7 55
upstream ENSMUSE00000259247 Chr11:114563095..114563190 GGTCATCTGCCTTGTCACCT Chr11:114563131..114563150 60.12 55
upstream ENSMUSE00000259237 Chr11:114563550..114563622 CTTCTCTGGCTGCTGATGCT Chr11:114563591..114563610 60.84 55
upstream ENSMUSE00000259225 Chr11:114568650..114568719 ACACAGGGAGCCAGATCAAC Chr11:114568696..114568715 60.12 55
upstream ENSMUSE00000259216 Chr11:114568993..114569048 GTGACCCGGTACTACCTCCA Chr11:114568995..114569014 59.84 60
upstream ENSMUSE00000259203 Chr11:114569731..114569823 CTCATTGACCACCATGCAGA Chr11:114569751..114569770 60.69 50
upstream ENSMUSE00000259191 Chr11:114570083..114570175 GAGATCAGCCTGCACCAGTT Chr11:114570122..114570141 60.42 55
upstream ENSMUSE00000259185 Chr11:114571357..114571499 TACCTAGACGCCCTCACTGG Chr11:114571360..114571379 60.27 60
upstream ENSMUSE00000259177 Chr11:114572125..114572310 ACGACGATGACCCTTTCAAC Chr11:114572148..114572167 59.97 50
upstream ENSMUSE00000259170 Chr11:114573074..114573152 CCAGGCCATACTCTTTGGTG Chr11:114573077..114573096 60.51 55

*** Putative Vector Insertion (Chr 11: 114573153 - 114580442) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000646313 Chr11:114580443..114582289 TGGTCCCAGAACGTAGATCC Chr11:114580993..114581012 59.93 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GCGTTTTATCCCGAAAACCT Chr11:114573182..114573202 60.31 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGACTCCGTGACTGGGAAAA Chr11:114576198..114576218 59.7 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000034714