Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI8122
Trapped Gene
Shoc2 (ENSMUSG00000024976)
Vector Insertion
Chr 19: 54092170 - 54100839
Public Clones RRG204 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 56% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000146798 (Chr19:54092039..54092169 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCCAGTTTAAATCGCCTTGG Chr19:54092047..54092066 60.07 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000146798 (Chr19:54092039..54092169 +)
Downstram Exon
ENSMUSE00000146794 (Chr19:54100840..54101028 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCCAGTTTAAATCGCCTTGG Chr19:54092047..54092066 60.07 45 GATGGACCTCCCACTGGATA Chr19:54100925..54100944 59.74 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000688724 Chr19:54019370..54019503 TCTCTGCTTTCCTGCCTGTC Chr19:54019463..54019482 60.68 55
upstream ENSMUSE00000354840 Chr19:54061944..54062873 AAGGGAAAGACGCCAAAGAT Chr19:54062307..54062326 60.07 45
upstream ENSMUSE00000146797 Chr19:54077499..54077636 GACCTACTGGACCTCCCAGA Chr19:54077609..54077628 59.1 60
upstream ENSMUSE00000146798 Chr19:54092039..54092169 TCCAGTTTAAATCGCCTTGG Chr19:54092047..54092066 60.07 45

*** Putative Vector Insertion (Chr 19: 54092170 - 54100839) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000146794 Chr19:54100840..54101028 GATGGACCTCCCACTGGATA Chr19:54100925..54100944 59.74 55
downstream ENSMUSE00000146796 Chr19:54102208..54102330 GGTCCAAGTTCCAAAATCCA Chr19:54102255..54102274 59.77 45
downstream ENSMUSE00000146795 Chr19:54103959..54104096 CTCCAGCTTGTTCTCCTCCA Chr19:54104060..54104079 60.52 55
downstream ENSMUSE00000146799 Chr19:54104351..54104468 AGGTGCGTGAGGTTGGTAAG Chr19:54104427..54104446 60.17 55
downstream ENSMUSE00000391894 Chr19:54105558..54107621 TGCCAGCTGTTTCAACAAAG Chr19:54106362..54106381 60.03 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGATAATCGCCTTGCAGCAC Chr19:54098218..54098238 60.38 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGTTTGCAAGACGTGACTGG Chr19:54092210..54092230 58.93 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000024976