Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13279
Trapped Gene
Qsox2 (ENSMUSG00000036327)
Vector Insertion
Chr 2: 26080668 - 26080775
Public Clones CMHD-GT_340E10-3 (cmhd)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000698302 (Chr2:26080669..26080891 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GATCGACTTCCTGCAGAACC Chr2:26080718..26080737 59.81 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000698302 (Chr2:26080669..26080891 -)
Downstram Exon
ENSMUSE00000646739 (Chr2:26080669..26080774 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GATCGACTTCCTGCAGAACC Chr2:26080718..26080737 59.81 55 CAGGTGCCCTCAGTATGGTT Chr2:26080680..26080699 59.99 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000340020 Chr2:26092563..26092908 CAGTTCCACTCGTCGTGGTG Chr2:26092619..26092638 62.79 60
upstream ENSMUSE00000646742 Chr2:26083867..26083967 CCGCACATATGACATCCACT Chr2:26083884..26083903 59.4 50
upstream ENSMUSE00000646740 Chr2:26081758..26081806 GGAGTTTACAACGGGAGAAAA Chr2:26081766..26081786 58.23 42.86
upstream ENSMUSE00000646739 Chr2:26080669..26080774 GATCGACTTCCTGCAGAACC Chr2:26080718..26080737 59.81 55
upstream ENSMUSE00000698302 Chr2:26080669..26080891 GATCGACTTCCTGCAGAACC Chr2:26080718..26080737 59.81 55

*** Putative Vector Insertion (Chr 2: 26080668 - 26080775) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000236376 Chr2:26080361..26080451 TGTGGCTATCCATGAAGGAA Chr2:26080395..26080414 59.08 45
downstream ENSMUSE00000236370 Chr2:26077741..26077886 CAAGTGTCCCCAGAAATGCT Chr2:26077783..26077802 60.11 50
downstream ENSMUSE00000662987 Chr2:26076429..26076563 CCAAACCACCACCTCTGATT Chr2:26076421..26076440 59.82 50
downstream ENSMUSE00000662986 Chr2:26076150..26076279 GCAACGACAGTCACGAAGTC Chr2:26076132..26076151 59.47 55
downstream ENSMUSE00000236343 Chr2:26074129..26074251 TCCTGCAGTGTCTCCAACAG Chr2:26074180..26074199 60.02 55
downstream ENSMUSE00000236334 Chr2:26073153..26073303 TCCAATCGACTTCCTTGACA Chr2:26073220..26073239 59.22 45
downstream ENSMUSE00000236323 Chr2:26069501..26069689 CGGCTGTTTACCATGTTGTG Chr2:26069487..26069506 60.03 50
downstream ENSMUSE00000236313 Chr2:26066794..26066979 GAGTATGCGTCCACCAGGTT Chr2:26066792..26066811 60 55
downstream ENSMUSE00000431370 Chr2:26065111..26065313 AGGTTCACGTGGCTGAGTCT Chr2:26065231..26065250 59.91 55
downstream ENSMUSE00000706984 Chr2:26064651..26066979 GAGTATGCGTCCACCAGGTT Chr2:26066792..26066811 60 55
downstream ENSMUSE00000569055 Chr2:26064645..26066979 GAGTATGCGTCCACCAGGTT Chr2:26066792..26066811 60 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TCAGGCAGACAATGATCGAC Chr2:26080729..26080749 59.79 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATCGACTTCCTCGTGACTGG Chr2:26080715..26080735 60.26 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000036327