Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI1610
Trapped Gene
Rsrc1 (ENSMUSG00000034544)
Vector Insertion
Chr 3: 66798635 - 66800386
Public Clones BB0200 (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 30% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000639028 (Chr3:66798439..66798634 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGCTTCGCTCGCATTCTTAT Chr3:66798607..66798626 59.23 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000639028 (Chr3:66798439..66798634 +)
Downstram Exon
ENSMUSE00000232676 (Chr3:66800387..66800512 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGCTTCGCTCGCATTCTTAT Chr3:66798607..66798626 59.23 45 GGAACGACTGCGACTTCTTT Chr3:66800456..66800475 59.48 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000639029 Chr3:66789594..66789728 AAGGCGCTGAGCTTAAATTG Chr3:66789617..66789636 59.63 45
upstream ENSMUSE00000450685 Chr3:66789891..66790011 GCTTGGCCTACAGTGTGGAG Chr3:66789979..66789998 60.85 60
upstream ENSMUSE00000500105 Chr3:66798439..66798634 AGCTTCGCTCGCATTCTTAT Chr3:66798607..66798626 59.23 45
upstream ENSMUSE00000639028 Chr3:66798439..66798634 AGCTTCGCTCGCATTCTTAT Chr3:66798607..66798626 59.23 45

*** Putative Vector Insertion (Chr 3: 66798635 - 66800386) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000232676 Chr3:66800387..66800512 GGAACGACTGCGACTTCTTT Chr3:66800456..66800475 59.48 50
downstream ENSMUSE00000639027 Chr3:66886458..66886631 TCCCGGACTTTACGTCTGTC Chr3:66886568..66886587 60.11 55
downstream ENSMUSE00000639026 Chr3:66984751..66984787 No primer for this exon
downstream ENSMUSE00000639025 Chr3:67010348..67010399 GCTTCAAGGACCAATTGCAG Chr3:67010397..67010416 60.78 50
downstream ENSMUSE00000639024 Chr3:67094269..67094337 No primer for this exon
downstream ENSMUSE00000639023 Chr3:67153831..67153937 TGTTCTACCAGGGTGGCTTG Chr3:67153855..67153874 61.08 55
downstream ENSMUSE00000450607 Chr3:67155618..67155674 CCATCATGTCTTCCCAGGAC Chr3:67155640..67155659 60.33 55
downstream ENSMUSE00000639022 Chr3:67159396..67159548 ACATGCTGCACTTCACTTGG Chr3:67159427..67159446 59.9 50
downstream ENSMUSE00000639021 Chr3:67160143..67162325 GTCTCTTTGCTTCCCGACAG Chr3:67161167..67161186 59.99 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATTGATGTTGTTGCCGTGAC Chr3:66798672..66798692 59.42 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000034544