Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI24064
Trapped Gene
Mllt6 (ENSMUSG00000038437)
Vector Insertion
Chr 11: 97528483 - 97530737
Public Clones D099G08 (ggtc) E128E11 (ggtc) D128E11 (ggtc)
Private Clones OST236138 (lexicon)
Severity of mutation (?) Insertion after 17% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000285987 (Chr11:97528389..97528482 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGAGGTGGACAACGTCAAGT Chr11:97528428..97528447 60.01 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000285987 (Chr11:97528389..97528482 +)
Downstram Exon
ENSMUSE00000285975 (Chr11:97530738..97530950 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGAGGTGGACAACGTCAAGT Chr11:97528428..97528447 60.01 55 ATGGTGGGTAGGGTGCTTCT Chr11:97530935..97530954 60.77 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000380979 Chr11:97524726..97524994 GAAAACCCGCTGGTCTACTG Chr11:97524940..97524959 59.73 55
upstream ENSMUSE00000335074 Chr11:97526269..97526348 ACCCTGGTTCTGCAGGAAAT Chr11:97526300..97526319 60.88 50
upstream ENSMUSE00000286009 Chr11:97526800..97526854 ACAAAGATGGGGCATTGAAG Chr11:97526819..97526838 59.93 45
upstream ENSMUSE00000286000 Chr11:97527044..97527153 CCTCATGATCGCTTCAACAA Chr11:97527133..97527152 59.8 45
upstream ENSMUSE00000285992 Chr11:97528104..97528207 AGCCTGCATGACCTGTAACC Chr11:97528154..97528173 60.14 55
upstream ENSMUSE00000285987 Chr11:97528389..97528482 GGAGGTGGACAACGTCAAGT Chr11:97528428..97528447 60.01 55

*** Putative Vector Insertion (Chr 11: 97528483 - 97530737) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000285975 Chr11:97530738..97530950 ATGGTGGGTAGGGTGCTTCT Chr11:97530935..97530954 60.77 55
downstream ENSMUSE00000285967 Chr11:97531567..97531665 GCGTTCTTTGTCCTTTCGAC Chr11:97531590..97531609 59.86 50
downstream ENSMUSE00000285958 Chr11:97533771..97533906 GAGGAAGAAGTCGCTGAGGA Chr11:97533796..97533815 59.68 55
downstream ENSMUSE00000673758 Chr11:97533771..97533996 GAGGAAGAAGTCGCTGAGGA Chr11:97533796..97533815 59.68 55
downstream ENSMUSE00000285949 Chr11:97534774..97535385 CCCGGTAATATGGGGAGACT Chr11:97535042..97535061 60.03 55
downstream ENSMUSE00000285944 Chr11:97535752..97535933 GGAAGCAGAAGAGGATGCAA Chr11:97535921..97535940 60.48 50
downstream ENSMUSE00000285939 Chr11:97536088..97536196 TGAGGAGGGGGTTAACAGTG Chr11:97536175..97536194 59.96 55
downstream ENSMUSE00000285928 Chr11:97537453..97537519 No primer for this exon
downstream ENSMUSE00000285919 Chr11:97537684..97537826 AGCTGCTCCATGTTGGTTGT Chr11:97537791..97537810 60.72 50
downstream ENSMUSE00000285912 Chr11:97538176..97538373 TTCGCTGTCAGGCTAAGGAT Chr11:97538260..97538279 59.98 50
downstream ENSMUSE00000285904 Chr11:97538462..97538550 GAGGTGGACAGGGAATTGTC Chr11:97538546..97538565 59.36 55
downstream ENSMUSE00000285893 Chr11:97539628..97539977 CTGTGGAAGGAGAGCGAAGA Chr11:97539683..97539702 60.67 55
downstream ENSMUSE00000285881 Chr11:97540279..97540369 GCTGAAGGAGGTGTCTCTGC Chr11:97540313..97540332 60.14 60
downstream ENSMUSE00000285873 Chr11:97541784..97542140 CTTGTATTGCTGCCCAGTGA Chr11:97542013..97542032 59.86 50
downstream ENSMUSE00000375518 Chr11:97542860..97546757 CAGGAGCTTGAGAGGGACAC Chr11:97546012..97546031 59.99 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TCAAGTACTGCGGCTACTGC Chr11:97528443..97528463 59.25 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TCAAGTACTGCGGCTACTGC Chr11:97528443..97528463 59.25 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000038437