Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13562
Trapped Gene
Rwdd2b (ENSMUSG00000041079)
Vector Insertion
Chr 16: 87434872 - 87436817
Public Clones CMHD-GT_384A9-3 (cmhd) CMHD-GT_303D7-3 (cmhd) IST10807B4 (tigm)
Private Clones OST6115 (lexicon)
Severity of mutation (?) Insertion after 73% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000266722 (Chr16:87436818..87437180 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCAGAGGATCTCGCTTTCAC Chr16:87436980..87436999 59.95 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000266722 (Chr16:87436818..87437180 -)
Downstram Exon
ENSMUSE00000443798 (Chr16:87433576..87434871 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCAGAGGATCTCGCTTTCAC Chr16:87436980..87436999 59.95 55 CAGTGAGCCAACAGGTCTGA Chr16:87434579..87434598 60.02 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000471614 Chr16:87440682..87440837 TCTCTCTGGGGTGAGACCTG Chr16:87440737..87440756 60.39 60
upstream ENSMUSE00000266745 Chr16:87437539..87437759 CAATGTGAGCCTGGACCTCT Chr16:87437553..87437572 60.26 55
upstream ENSMUSE00000266735 Chr16:87437309..87437376 GTCCTGCCCGAAATTACAGT Chr16:87437312..87437331 59.06 50
upstream ENSMUSE00000266722 Chr16:87436818..87437180 CCAGAGGATCTCGCTTTCAC Chr16:87436980..87436999 59.95 55

*** Putative Vector Insertion (Chr 16: 87434872 - 87436817) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000443798 Chr16:87433576..87434871 CAGTGAGCCAACAGGTCTGA Chr16:87434579..87434598 60.02 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AAGTAATCGCCTTGCAGCAC Chr16:87436749..87436769 60.42 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCTTGTGAGGAATTCTGGTCA Chr16:87436818..87436839 60.25 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CAAGGGCATCGACTGAGTTT Chr16:87437206..87437226 60.26 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CAAGGGCATCGACTGAGTTT Chr16:87437206..87437226 60.26 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000041079