Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI22391
Trapped Gene
Dnajc17 (ENSMUSG00000034278)
Vector Insertion
Chr 2: 118998422 - 119005087
Public Clones CMHD-GT_492A2-3 (cmhd) CMHD-GT_498D1-3 (cmhd) CMHD-GT_362G4-3 (cmhd)
Private Clones OST298738 (lexicon) OST18486 (lexicon)
Severity of mutation (?) Insertion after 87% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000307679 (Chr2:119005088..119005198 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGAAGGTTTCCTGGTTGGAG Chr2:119005136..119005155 60.08 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000307679 (Chr2:119005088..119005198 -)
Downstram Exon
ENSMUSE00000384836 (Chr2:118998243..118998421 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGAAGGTTTCCTGGTTGGAG Chr2:119005136..119005155 60.08 50 TCCCTTTCTGACAGCACTGA Chr2:118998377..118998396 59.54 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000307758 Chr2:119034424..119034510 ACTAGAACCATGGCGGTGAC Chr2:119034491..119034510 60 55
upstream ENSMUSE00000307752 Chr2:119012082..119012151 AAGAAGGCGTACAGGCAAAA Chr2:119012129..119012148 59.88 45
upstream ENSMUSE00000307747 Chr2:119011765..119011823 AACTCTTCCACCAGCTGTCC Chr2:119011801..119011820 59.31 55
upstream ENSMUSE00000307739 Chr2:119011432..119011519 GGACCCAGAGACTTGACGAG Chr2:119011454..119011473 59.83 60
upstream ENSMUSE00000307729 Chr2:119009653..119009738 CATGGGAGTGAGGAAGAGGA Chr2:119009687..119009706 60.19 55
upstream ENSMUSE00000307719 Chr2:119009335..119009431 AGAAGAGGGTTCCCGTCAGT Chr2:119009398..119009417 60.11 55
upstream ENSMUSE00000307708 Chr2:119006662..119006705 CAAAGGAACCCCCAAACTAAA Chr2:119006663..119006683 60.2 42.86
upstream ENSMUSE00000307697 Chr2:119006223..119006300 AGTCCCAAGGTGGCTACTCC Chr2:119006253..119006272 60.51 60
upstream ENSMUSE00000307689 Chr2:119005621..119005701 AGGCAATGCCATAGTGGAGT Chr2:119005641..119005660 59.58 50
upstream ENSMUSE00000307679 Chr2:119005088..119005198 TGAAGGTTTCCTGGTTGGAG Chr2:119005136..119005155 60.08 50

*** Putative Vector Insertion (Chr 2: 118998422 - 119005087) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000384836 Chr2:118998243..118998421 TCCCTTTCTGACAGCACTGA Chr2:118998377..118998396 59.54 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGCTCTGTCCTAAGGCTGCT Chr2:118999059..118999079 60.3 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGCTCTGTCCTAAGGCTGCT Chr2:118999059..118999079 60.3 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000034278