Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI38701
Trapped Gene
Setd6 (ENSMUSG00000031671)
Vector Insertion
Chr 8: 98240395 - 98240506
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 34% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000211645 (Chr8:98240253..98240394 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ATCACCCTGGAGCCCTTACT Chr8:98240329..98240348 59.96 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000211645 (Chr8:98240253..98240394 +)
Downstram Exon
ENSMUSE00000241403 (Chr8:98240507..98240701 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ATCACCCTGGAGCCCTTACT Chr8:98240329..98240348 59.96 55 ATTCGCTACGGATGTTCACC Chr8:98240595..98240614 59.96 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000241414 Chr8:98239813..98240170 GTCCTAAGGTGACGGTGAGC Chr8:98240018..98240037 59.73 60
upstream ENSMUSE00000211645 Chr8:98240253..98240394 ATCACCCTGGAGCCCTTACT Chr8:98240329..98240348 59.96 55

*** Putative Vector Insertion (Chr 8: 98240395 - 98240506) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000241403 Chr8:98240507..98240701 ATTCGCTACGGATGTTCACC Chr8:98240595..98240614 59.96 50
downstream ENSMUSE00000241394 Chr8:98240821..98240941 TGAGTTGGGCTCCTTTTCAT Chr8:98240872..98240891 59.67 45
downstream ENSMUSE00000211648 Chr8:98241821..98242001 GTAGCCACCATCCGGAGATA Chr8:98241846..98241865 59.92 55
downstream ENSMUSE00000211649 Chr8:98242093..98242235 TGTGGTGGCTAGCTCCTCTT Chr8:98242232..98242251 60.01 55
downstream ENSMUSE00000211647 Chr8:98242376..98242904 TGCCAAACTGTCGTCTTCTG Chr8:98242465..98242484 60.03 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTTTGCTCTAATCGCCTTGC Chr8:98240438..98240458 60.12 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CATCCCATGTTTTGGTGAGA Chr8:98240382..98240402 59.34 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031671