Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI27241
Trapped Gene
Ankrd10 (ENSMUSG00000031508)
Vector Insertion
Chr 8: 11619298 - 11628438
Public Clones E044D10 (ggtc)
Private Clones OST65867 (lexicon)
Severity of mutation (?) Insertion after 36% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000210346 (Chr8:11628439..11628530 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGAAACTCCCATTCACAAGG Chr8:11628500..11628519 59.38 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000210346 (Chr8:11628439..11628530 -)
Downstram Exon
ENSMUSE00000210342 (Chr8:11619062..11619297 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGAAACTCCCATTCACAAGG Chr8:11628500..11628519 59.38 50 GAAACGGCTCATTTGATGGT Chr8:11619167..11619186 59.94 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000210344 Chr8:11635411..11635754 TGTCCTTTGTGTTCGAGTGG Chr8:11635688..11635707 59.72 50
upstream ENSMUSE00000210341 Chr8:11632866..11633018 GCAGGAGCCTCACTGAATGT Chr8:11632972..11632991 60.42 55
upstream ENSMUSE00000210346 Chr8:11628439..11628530 GGAAACTCCCATTCACAAGG Chr8:11628500..11628519 59.38 50

*** Putative Vector Insertion (Chr 8: 11619298 - 11628438) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000210342 Chr8:11619062..11619297 GAAACGGCTCATTTGATGGT Chr8:11619167..11619186 59.94 45
downstream ENSMUSE00000210345 Chr8:11615815..11615910 TCTGTCGGCATCATCTTCAG Chr8:11615827..11615846 59.94 50
downstream ENSMUSE00000210343 Chr8:11611583..11612947 GCACAGAGCAGCACTCTACG Chr8:11612334..11612353 59.95 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CAAGGTACCCACACATGCAG Chr8:11619398..11619418 60.03 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAAGGTACCCACACATGCAG Chr8:11619398..11619418 60.03 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AGGACTGTGAGGGGGAAACT Chr8:11619511..11619531 59.97 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TTGAGCGTGACTGGGAAAAC Chr8:11619465..11619485 61.22 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031508