Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI6114
Trapped Gene
Map3k7ip3 (ENSMUSG00000035476)
Vector Insertion
Chr X: 82873601 - 82875744
Public Clones YHD284 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 93% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000623244 (ChrX:82873499..82873600 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ACTTCCAAAGCGCCAGTAGA ChrX:82873549..82873568 60.01 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000623244 (ChrX:82873499..82873600 +)
Downstram Exon
ENSMUSE00000303468 (ChrX:82875745..82879653 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ACTTCCAAAGCGCCAGTAGA ChrX:82873549..82873568 60.01 50 TGGACAATTGGTGCTGTTGT ChrX:82879575..82879594 60.01 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000623247 ChrX:82819361..82819504 No primer for this exon
upstream ENSMUSE00000623246 ChrX:82820889..82820949 TGTTGGAGCAAAGTGAGCTG ChrX:82820907..82820926 60.17 50
upstream ENSMUSE00000623245 ChrX:82854729..82854923 GAGGGTGTGGTATCCCAGTG ChrX:82854894..82854913 60.24 60
upstream ENSMUSE00000303515 ChrX:82859310..82860768 CGGGTGATACCAAATCCAAC ChrX:82860555..82860574 60.05 50
upstream ENSMUSE00000303508 ChrX:82861713..82861873 GCTGTTACATCAGCGAGCAA ChrX:82861717..82861736 60.17 50
upstream ENSMUSE00000303502 ChrX:82866893..82866986 GAAGCACGAACAGACAACTCC ChrX:82866915..82866935 59.91 52.38
upstream ENSMUSE00000303494 ChrX:82869681..82869764 CCACCGAAGCCATCTAAAAA ChrX:82869743..82869762 60.07 45
upstream ENSMUSE00000623244 ChrX:82873499..82873600 ACTTCCAAAGCGCCAGTAGA ChrX:82873549..82873568 60.01 50

*** Putative Vector Insertion (Chr X: 82873601 - 82875744) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000303468 ChrX:82875745..82879653 TGGACAATTGGTGCTGTTGT ChrX:82879575..82879594 60.01 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTAATCGCCTTGCAGCACAT ChrX:82873651..82873671 61.32 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TAACCGTGACTGGGAAAACC ChrX:82873648..82873668 59.83 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000035476