Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI19326
Trapped Gene
Socs7 (ENSMUSG00000038485)
Vector Insertion
Chr 11: 97244343 - 97250425
Public Clones not available
Private Clones OST395208 (lexicon)
Severity of mutation (?) Insertion after 85% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000286675 (Chr11:97244214..97244342 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TATGGTGCCATCCCAAGTTT Chr11:97244226..97244245 60.19 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000286675 (Chr11:97244214..97244342 +)
Downstram Exon
ENSMUSE00000286667 (Chr11:97250426..97250561 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TATGGTGCCATCCCAAGTTT Chr11:97244226..97244245 60.19 45 ATCCGGAATCTGCAAAGATG Chr11:97250516..97250535 60.04 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000379250 Chr11:97223865..97224737 GAAGGGCTCCTTCAAAATCC Chr11:97224567..97224586 60.02 50
upstream ENSMUSE00000286717 Chr11:97234380..97234444 CCCAGGTTGACAAGAACTCAA Chr11:97234384..97234404 60.13 47.62
upstream ENSMUSE00000286708 Chr11:97237751..97237855 CAGTATCGCTTGTGGACGTG Chr11:97237757..97237776 60.32 55
upstream ENSMUSE00000286697 Chr11:97238311..97238412 GACGCTGCCTACATCTGTCC Chr11:97238324..97238343 60.83 60
upstream ENSMUSE00000286688 Chr11:97239250..97239380 CCATCAGAGCGTCAGAATCC Chr11:97239271..97239290 60.77 55
upstream ENSMUSE00000286682 Chr11:97239857..97240025 GAGCCTCAGCTTTCGATCAC Chr11:97239967..97239986 60.1 55
upstream ENSMUSE00000286675 Chr11:97244214..97244342 TATGGTGCCATCCCAAGTTT Chr11:97244226..97244245 60.19 45

*** Putative Vector Insertion (Chr 11: 97244343 - 97250425) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000286667 Chr11:97250426..97250561 ATCCGGAATCTGCAAAGATG Chr11:97250516..97250535 60.04 45
downstream ENSMUSE00000286660 Chr11:97250880..97251030 AATGAGCTGCGCTTCCTTTA Chr11:97250967..97250986 60.12 45
downstream ENSMUSE00000383143 Chr11:97254703..97259856 AAGACATGGGTCGGTACAGC Chr11:97259811..97259830 60 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CATGTACCTAATCGCCTTGC Chr11:97244386..97244406 58.27 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TCTTCCCCACAGCACTTCTT Chr11:97244348..97244368 59.84 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000038485