Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI24574
Trapped Gene
Ltbp4 (ENSMUSG00000040488)
Vector Insertion
Chr 7: 28120555 - 28120671
Public Clones not available
Private Clones OST214499 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000488113 (Chr7:28120672..28120730 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCTGCCTAGACCAGACACCT Chr7:28120694..28120713 59.48 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000488113 (Chr7:28120672..28120730 -)
Downstram Exon
ENSMUSE00000490043 (Chr7:28120416..28120554 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCTGCCTAGACCAGACACCT Chr7:28120694..28120713 59.48 60 GACTCTTCTCCACGGGACTG Chr7:28120422..28120441 59.83 60

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000501397 Chr7:28122447..28122711 AGAAAGTGAGTCGGCCTCTG Chr7:28122681..28122700 59.6 55
upstream ENSMUSE00000676489 Chr7:28120696..28120730 TGTCACTGCTGCCTAGACCA Chr7:28120701..28120720 60.62 55
upstream ENSMUSE00000488113 Chr7:28120672..28120730 GCTGCCTAGACCAGACACCT Chr7:28120694..28120713 59.48 60

*** Putative Vector Insertion (Chr 7: 28120555 - 28120671) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000490043 Chr7:28120416..28120554 GACTCTTCTCCACGGGACTG Chr7:28120422..28120441 59.83 60
downstream ENSMUSE00000484703 Chr7:28119856..28119965 No primer for this exon
downstream ENSMUSE00000676487 Chr7:28118431..28118648 ACCAATAGCGACACCCAGAG Chr7:28118561..28118580 60.13 55
downstream ENSMUSE00000676486 Chr7:28118374..28118428 No primer for this exon
downstream ENSMUSE00000708828 Chr7:28118374..28118667 ACCAATAGCGACACCCAGAG Chr7:28118561..28118580 60.13 55
downstream ENSMUSE00000709573 Chr7:28118374..28118632 ACCAATAGCGACACCCAGAG Chr7:28118561..28118580 60.13 55
downstream ENSMUSE00000716944 Chr7:28118374..28118682 ACCAATAGCGACACCCAGAG Chr7:28118561..28118580 60.13 55
downstream ENSMUSE00000307052 Chr7:28115146..28115337 ACCACCGTTGTGACAGATCA Chr7:28115284..28115303 60.01 50
downstream ENSMUSE00000535658 Chr7:28114590..28114837 CTTCCGCGCAGTTCTCTAAA Chr7:28114572..28114591 60.65 50
downstream ENSMUSE00000535657 Chr7:28114398..28114500 CACGGGTGACAATCATGAAC Chr7:28114390..28114409 59.81 50
downstream ENSMUSE00000535656 Chr7:28113987..28114061 GCCACTCACTTGGTTGGAGT Chr7:28114017..28114036 60.16 55
downstream ENSMUSE00000535654 Chr7:28113759..28113881 GAAACCGTCCGGACATACAC Chr7:28113768..28113787 60.24 55
downstream ENSMUSE00000535653 Chr7:28113205..28113369 CATCATGCAGCACTCGGTAG Chr7:28113294..28113313 60.44 55
downstream ENSMUSE00000407351 Chr7:28112657..28112806 TGGTGTTGTATCGGAGGTCA Chr7:28112713..28112732 59.96 50
downstream ENSMUSE00000362610 Chr7:28112280..28112531 GGTCGACGAGTAGGCAGAAA Chr7:28112488..28112507 60.4 55
downstream ENSMUSE00000307165 Chr7:28111711..28111842 No primer for this exon
downstream ENSMUSE00000307108 Chr7:28111506..28111631 GCCTGGTGTATTCTCGCAAC Chr7:28111545..28111564 60.67 55
downstream ENSMUSE00000307161 Chr7:28110697..28110822 CGGGACACACACATAGGAAA Chr7:28110714..28110733 59.42 50
downstream ENSMUSE00000307156 Chr7:28110038..28110280 No primer for this exon
downstream ENSMUSE00000307950 Chr7:28109313..28109438 GTTGGGCAGACACACTTGAA Chr7:28109329..28109348 59.73 50
downstream ENSMUSE00000308043 Chr7:28109106..28109225 AGCGGTTCTCACACTCATCC Chr7:28109180..28109199 60.27 55
downstream ENSMUSE00000308034 Chr7:28108161..28108289 No primer for this exon
downstream ENSMUSE00000308025 Chr7:28107830..28107955 GACAAGATGCTCCACGAGGT Chr7:28107811..28107830 60.27 55
downstream ENSMUSE00000308018 Chr7:28107308..28107430 AGATCCTCTTCGCTGCACTC Chr7:28107381..28107400 59.71 55
downstream ENSMUSE00000308012 Chr7:28107041..28107172 TGGTAACCTGGATCGCAGTC Chr7:28107045..28107064 61.07 55
downstream ENSMUSE00000307031 Chr7:28104644..28104775 ACAAATCGCAGAGCCGTATT Chr7:28104716..28104735 59.74 45
downstream ENSMUSE00000307152 Chr7:28104430..28104555 GCAGATTCTGGCACATAGCA Chr7:28104474..28104493 59.98 50
downstream ENSMUSE00000535649 Chr7:28099256..28099402 CACACGCCCTGTAGTGTCTC Chr7:28099347..28099366 59.34 60
downstream ENSMUSE00000711483 Chr7:28096579..28096831 GAATAGGGGCACGTGTGTAAA Chr7:28096615..28096635 59.88 47.62
downstream ENSMUSE00000535648 Chr7:28095540..28095806 ATTGTCACACGCATCTGGAG Chr7:28095618..28095637 59.71 50
downstream ENSMUSE00000535647 Chr7:28095200..28095271 CCGTGAGGACACAATGACTG Chr7:28095222..28095241 60.15 55
downstream ENSMUSE00000535645 Chr7:28094305..28094433 AAGAGTTGGCATTCGTCCAC Chr7:28094390..28094409 60.12 50
downstream ENSMUSE00000535644 Chr7:28093940..28094086 GCTCGCAGGTACAGTGGTAAG Chr7:28093978..28093998 59.95 57.14
downstream ENSMUSE00000307972 Chr7:28092787..28092939 AGACAGCAGCACTCGGTGTA Chr7:28092818..28092837 59.65 55
downstream ENSMUSE00000307021 Chr7:28091581..28091961 AGGGGTCGTAGGGTAGCACT Chr7:28091772..28091791 60.02 60
downstream ENSMUSE00000307074 Chr7:28091086..28091238 TACCACACTCTTCGGCCTCT Chr7:28091169..28091188 59.87 55
downstream ENSMUSE00000719934 Chr7:28091017..28091238 TACCACACTCTTCGGCCTCT Chr7:28091169..28091188 59.87 55
downstream ENSMUSE00000465029 Chr7:28090161..28090569 GCAAATCCTGGACGACAGAT Chr7:28090442..28090461 60.08 50
downstream ENSMUSE00000709638 Chr7:28090159..28090569 GCAAATCCTGGACGACAGAT Chr7:28090442..28090461 60.08 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CATCCAAATAATCGCCTTGC Chr7:28120608..28120628 60.42 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TCACTGCTGCCTAGACCAGA Chr7:28120697..28120717 59.73 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040488