Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI1853
Trapped Gene
4632404H22Rik (ENSMUSG00000036022)
Vector Insertion
Chr X: 50613911 - 50619217
Public Clones AZ0548 (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 23% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000309481 (ChrX:50619218..50619296 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGACCAGTACGGCAATTATGA ChrX:50619232..50619252 59.84 47.62 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000309481 (ChrX:50619218..50619296 -)
Downstram Exon
ENSMUSE00000309473 (ChrX:50613867..50613910 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGACCAGTACGGCAATTATGA ChrX:50619232..50619252 59.84 47.62 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000309488 ChrX:50622053..50622208 AGTATCCGAATGGCTCAGGA ChrX:50622140..50622159 59.65 50
upstream ENSMUSE00000700757 ChrX:50622053..50622197 AGTATCCGAATGGCTCAGGA ChrX:50622140..50622159 59.65 50
upstream ENSMUSE00000700768 ChrX:50622053..50622975 GCGGGTCATTAGAGCCAATA ChrX:50622888..50622907 60.06 50
upstream ENSMUSE00000710587 ChrX:50622053..50622975 GCGGGTCATTAGAGCCAATA ChrX:50622888..50622907 60.06 50
upstream ENSMUSE00000309481 ChrX:50619218..50619296 GGACCAGTACGGCAATTATGA ChrX:50619232..50619252 59.84 47.62

*** Putative Vector Insertion (Chr X: 50613911 - 50619217) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000309473 ChrX:50613867..50613910 No primer for this exon
downstream ENSMUSE00000309465 ChrX:50613723..50613777 TCGTCCCATGACTGGCTTAT ChrX:50613714..50613733 60.48 50
downstream ENSMUSE00000309457 ChrX:50613372..50613473 AAATCCTCTGGTTGGGGAAG ChrX:50613356..50613375 60.3 50
downstream ENSMUSE00000309446 ChrX:50613018..50613103 TGGATTGAGAACAGGACTCG ChrX:50613010..50613029 58.8 50
downstream ENSMUSE00000506756 ChrX:50612134..50612198 ACTGGGCCTAATGCACTTGA ChrX:50612137..50612156 60.66 50
downstream ENSMUSE00000700764 ChrX:50612134..50612195 ACCAAGAACACTGGGCCTAA ChrX:50612128..50612147 59.59 50
downstream ENSMUSE00000309431 ChrX:50607213..50607309 GGGTCTCTTAGGCTGGCTTT ChrX:50607253..50607272 59.85 55
downstream ENSMUSE00000700755 ChrX:50607211..50607309 GGGTCTCTTAGGCTGGCTTT ChrX:50607253..50607272 59.85 55
downstream ENSMUSE00000700754 ChrX:50607069..50607106 No primer for this exon
downstream ENSMUSE00000700762 ChrX:50596923..50598548 TGTACCCCAAGGCACCTAAG ChrX:50598361..50598380 59.99 55
downstream ENSMUSE00000520247 ChrX:50596611..50599467 TGTACCCCAAGGCACCTAAG ChrX:50598361..50598380 59.99 55
downstream ENSMUSE00000700756 ChrX:50596602..50599467 TGTACCCCAAGGCACCTAAG ChrX:50598361..50598380 59.99 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGACCAGTACGGCAATTATGA ChrX:50616230..50616251 59.84 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGCGGGAAAAATACTTCGT ChrX:50616163..50616183 59.22 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000036022