Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI29231
Trapped Gene
Tex264 (ENSMUSG00000040813)
Vector Insertion
Chr 9: 106576070 - 106584198
Public Clones IST12824G10 (tigm)
Private Clones OST2929 (lexicon)
Severity of mutation (?) Insertion after 28% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000260073 (Chr9:106584199..106584494 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCATGCCGGATCTCCTACTA Chr9:106584439..106584458 60.05 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000260073 (Chr9:106584199..106584494 -)
Downstram Exon
ENSMUSE00000260052 (Chr9:106575848..106576069 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCATGCCGGATCTCCTACTA Chr9:106584439..106584458 60.05 55 TATCCAAGGCAGGATGGACT Chr9:106575837..106575856 59.51 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000371901 Chr9:106588166..106588246 CACGACTGAGCCCCTATCTT Chr9:106588205..106588224 59.31 55
upstream ENSMUSE00000385038 Chr9:106587260..106587326 CCTGCTGGACTGGATGCTAT Chr9:106587290..106587309 60.24 55
upstream ENSMUSE00000260073 Chr9:106584199..106584494 CCATGCCGGATCTCCTACTA Chr9:106584439..106584458 60.05 55

*** Putative Vector Insertion (Chr 9: 106576070 - 106584198) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000260052 Chr9:106575848..106576069 TATCCAAGGCAGGATGGACT Chr9:106575837..106575856 59.51 50
downstream ENSMUSE00000260039 Chr9:106564691..106564859 AGTGGGCACATGAAATGGAT Chr9:106564767..106564786 60.2 45
downstream ENSMUSE00000634505 Chr9:106561084..106561638 GGAAGGAGGTTTAGGCTTGG Chr9:106561195..106561214 60.07 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CAGGCAAGGGATAACAAGGA Chr9:106584189..106584209 60.07 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGGCAAGGGATAACAAGGA Chr9:106584189..106584209 60.07 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CCTCTGCCACGTACTCAGTG Chr9:106584445..106584465 59.49 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCTCTGCCACGTACTCAGTG Chr9:106584445..106584465 59.49 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040813