Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI29277
Trapped Gene
Lrrc23 (ENSMUSG00000030125)
Vector Insertion
Chr 6: 124720182 - 124720589
Public Clones not available
Private Clones OST959 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000195522 (Chr6:124720590..124720893 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GAACCGTACTTGCCACCAGT Chr6:124720624..124720643 60.03 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000195522 (Chr6:124720590..124720893 -)
Downstram Exon
ENSMUSE00000691796 (Chr6:124719888..124720181 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GAACCGTACTTGCCACCAGT Chr6:124720624..124720643 60.03 55 CCCCCACTGGAGTCTTATCA Chr6:124720113..124720132 59.92 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000247729 Chr6:124729668..124729736 AACAGTCTTGGCGTCTCAGC Chr6:124729712..124729731 60.6 55
upstream ENSMUSE00000691799 Chr6:124729668..124729745 AACAGTCTTGGCGTCTCAGC Chr6:124729712..124729731 60.6 55
upstream ENSMUSE00000247723 Chr6:124729030..124729193 GACGTTGATGCAGAACAGGA Chr6:124729103..124729122 59.84 50
upstream ENSMUSE00000691798 Chr6:124729030..124729164 GACGTTGATGCAGAACAGGA Chr6:124729103..124729122 59.84 50
upstream ENSMUSE00000195524 Chr6:124728835..124728944 GTGGACTGGCTCACGCTTAT Chr6:124728858..124728877 60.28 55
upstream ENSMUSE00000195521 Chr6:124728110..124728363 ATATCGCCGCTCAACAGTCT Chr6:124728265..124728284 59.87 50
upstream ENSMUSE00000195526 Chr6:124726088..124726218 AACCAGCTGGAATCCACAAA Chr6:124726125..124726144 60.49 45
upstream ENSMUSE00000195527 Chr6:124724364..124724500 CTGCGAGACAACCAGATTGA Chr6:124724418..124724437 59.98 50
upstream ENSMUSE00000195522 Chr6:124720590..124720893 GAACCGTACTTGCCACCAGT Chr6:124720624..124720643 60.03 55

*** Putative Vector Insertion (Chr 6: 124720182 - 124720589) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000691796 Chr6:124719888..124720181 CCCCCACTGGAGTCTTATCA Chr6:124720113..124720132 59.92 55
downstream ENSMUSE00000247683 Chr6:124719881..124720181 CCCCCACTGGAGTCTTATCA Chr6:124720113..124720132 59.92 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGCCTGCAGGGACAGTAAAG Chr6:124720588..124720608 59.5 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGCCTGCAGGGACAGTAAAG Chr6:124720588..124720608 59.5 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000030125