Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20362
Trapped Gene
Cstf2 (ENSMUSG00000031256)
Vector Insertion
Chr X: 130615856 - 130618770
Public Clones not available
Private Clones OST365529 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000695051 (ChrX:130615730..130615855 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GCCTCCTGAGCAAAGACAGA ChrX:130615783..130615802 60.68 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000695051 (ChrX:130615730..130615855 +)
Downstram Exon
ENSMUSE00000695036 (ChrX:130618771..130620585 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GCCTCCTGAGCAAAGACAGA ChrX:130615783..130615802 60.68 55 TTCCTCCCAGAAAGCTCTGA ChrX:130619274..130619293 60.06 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000695039 ChrX:130593726..130593961 No primer for this exon
upstream ENSMUSE00000695034 ChrX:130593754..130593961 No primer for this exon
upstream ENSMUSE00000695065 ChrX:130593873..130593961 No primer for this exon
upstream ENSMUSE00000707981 ChrX:130593888..130593961 No primer for this exon
upstream ENSMUSE00000713812 ChrX:130593888..130593961 No primer for this exon
upstream ENSMUSE00000207638 ChrX:130595183..130595261 TGGGCCTGTTGTTAGTTTCA ChrX:130595241..130595260 59.17 45
upstream ENSMUSE00000695030 ChrX:130595183..130595261 TGGGCCTGTTGTTAGTTTCA ChrX:130595241..130595260 59.17 45
upstream ENSMUSE00000207637 ChrX:130595484..130595653 CTTAGTGCCATGCGGAACTT ChrX:130595557..130595576 60.27 50
upstream ENSMUSE00000695029 ChrX:130595484..130595653 CTTAGTGCCATGCGGAACTT ChrX:130595557..130595576 60.27 50
upstream ENSMUSE00000207648 ChrX:130596233..130596369 AAAGCAGTTGCCAGTCTTCC ChrX:130596313..130596332 59.48 50
upstream ENSMUSE00000709193 ChrX:130596233..130596369 AAAGCAGTTGCCAGTCTTCC ChrX:130596313..130596332 59.48 50
upstream ENSMUSE00000709881 ChrX:130596233..130596369 AAAGCAGTTGCCAGTCTTCC ChrX:130596313..130596332 59.48 50
upstream ENSMUSE00000207646 ChrX:130596907..130597026 ATCCACAGCTGGCTTATGCT ChrX:130596956..130596975 59.87 50
upstream ENSMUSE00000695018 ChrX:130596907..130597026 ATCCACAGCTGGCTTATGCT ChrX:130596956..130596975 59.87 50
upstream ENSMUSE00000695017 ChrX:130597137..130597274 AAAATTCTGCATCGCCAGAC ChrX:130597137..130597156 60.22 45
upstream ENSMUSE00000711029 ChrX:130597137..130597274 AAAATTCTGCATCGCCAGAC ChrX:130597137..130597156 60.22 45
upstream ENSMUSE00000711642 ChrX:130597137..130597274 AAAATTCTGCATCGCCAGAC ChrX:130597137..130597156 60.22 45
upstream ENSMUSE00000207649 ChrX:130600800..130600923 GCTTCTATGCCAGGTGGAGT ChrX:130600839..130600858 59.31 55
upstream ENSMUSE00000695061 ChrX:130600800..130600923 GCTTCTATGCCAGGTGGAGT ChrX:130600839..130600858 59.31 55
upstream ENSMUSE00000207640 ChrX:130604384..130604446 AGTTGGAATGCAAGGAGCTG ChrX:130604400..130604419 60.4 50
upstream ENSMUSE00000695059 ChrX:130604384..130604446 AGTTGGAATGCAAGGAGCTG ChrX:130604400..130604419 60.4 50
upstream ENSMUSE00000695024 ChrX:130606954..130607013 TGCATCAATTGAGCGAGTTC ChrX:130606991..130607010 59.96 45
upstream ENSMUSE00000695023 ChrX:130607217..130607303 TCCCTCCCTACTGGTGTCAG ChrX:130607260..130607279 60.1 60
upstream ENSMUSE00000207641 ChrX:130607675..130607816 TACCAACGTCCCAACTCCTC ChrX:130607721..130607740 59.97 55
upstream ENSMUSE00000695057 ChrX:130607675..130607816 TACCAACGTCCCAACTCCTC ChrX:130607721..130607740 59.97 55
upstream ENSMUSE00000695037 ChrX:130607753..130607816 CGGGGAGGCACTTTAATGAC ChrX:130607773..130607792 61.75 55
upstream ENSMUSE00000695055 ChrX:130608665..130608849 CCAAGAGGACCCATGCTAGA ChrX:130608801..130608820 60.21 55
upstream ENSMUSE00000712268 ChrX:130608665..130608849 CCAAGAGGACCCATGCTAGA ChrX:130608801..130608820 60.21 55
upstream ENSMUSE00000712531 ChrX:130608665..130608849 CCAAGAGGACCCATGCTAGA ChrX:130608801..130608820 60.21 55
upstream ENSMUSE00000207647 ChrX:130609052..130609344 ATCCAAGGTCCCAATCCAAT ChrX:130609288..130609307 60.39 45
upstream ENSMUSE00000695033 ChrX:130609052..130610402 TTTGAGCAGCTGCATATTGG ChrX:130609648..130609667 59.98 45
upstream ENSMUSE00000695053 ChrX:130609052..130609344 ATCCAAGGTCCCAATCCAAT ChrX:130609288..130609307 60.39 45
upstream ENSMUSE00000207644 ChrX:130614866..130614976 AGCCTGGTGGCTTTAGTCCT ChrX:130614921..130614940 60.27 55
upstream ENSMUSE00000695052 ChrX:130614866..130614976 AGCCTGGTGGCTTTAGTCCT ChrX:130614921..130614940 60.27 55
upstream ENSMUSE00000207643 ChrX:130615730..130615855 GCCTCCTGAGCAAAGACAGA ChrX:130615783..130615802 60.68 55
upstream ENSMUSE00000695051 ChrX:130615730..130615855 GCCTCCTGAGCAAAGACAGA ChrX:130615783..130615802 60.68 55

*** Putative Vector Insertion (Chr X: 130615856 - 130618770) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000349146 ChrX:130618771..130621360 ACAATAAGCACGCTGGCTCT ChrX:130620877..130620896 60.04 50
downstream ENSMUSE00000695036 ChrX:130618771..130620585 TTCCTCCCAGAAAGCTCTGA ChrX:130619274..130619293 60.06 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAATCGCCTTGCAGCACATC ChrX:130615907..130615927 62.25 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGACGTGACTGGGAAAACC ChrX:130615903..130615923 60.93 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031256