Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI26441
Trapped Gene
Klhdc9 (ENSMUSG00000045259)
Vector Insertion
Chr 1: 173290033 - 173290265
Public Clones not available
Private Clones OST117983 (lexicon) OST54106 (lexicon)
Severity of mutation (?) Insertion after 50% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000362387 (Chr1:173290266..173290792 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GACCACAGGACCCGAACTTA Chr1:173290269..173290288 59.97 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000362387 (Chr1:173290266..173290792 -)
Downstram Exon
ENSMUSE00000389865 (Chr1:173289873..173290032 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GACCACAGGACCCGAACTTA Chr1:173290269..173290288 59.97 55 CTGATCGTGAGGTTGTGTGG Chr1:173289973..173289992 60.15 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000362387 Chr1:173290266..173290792 GACCACAGGACCCGAACTTA Chr1:173290269..173290288 59.97 55

*** Putative Vector Insertion (Chr 1: 173290033 - 173290265) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000389865 Chr1:173289873..173290032 CTGATCGTGAGGTTGTGTGG Chr1:173289973..173289992 60.15 55
downstream ENSMUSE00000403325 Chr1:173289586..173289784 TCAGAGTTTCTCCGCCAAAT Chr1:173289612..173289631 59.81 45
downstream ENSMUSE00000372846 Chr1:173288849..173289111 CAAACCTGTGGGCTAGCTGT Chr1:173288945..173288964 60.31 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GACCACAGGACCCGAACTTA Chr1:173290267..173290287 59.97 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GACCACAGGACCCGAACTTA Chr1:173290267..173290287 59.97 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000045259