Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20228
Trapped Gene
Baz2a (ENSMUSG00000040054)
Vector Insertion
Chr 10: 127496083 - 127533492
Public Clones IST14632G5 (tigm) IST10218F10 (tigm) IST13580F4 (tigm) IST14183C4 (tigm)
IST13390E4 (tigm) IST14755C10 (tigm) IST13565F11 (tigm) IST13657G6 (tigm)
IST14613G12 (tigm) IST14490C2 (tigm) IST14326A1 (tigm) IST13772E9 (tigm)
IST13789C9 (tigm) IST12576E6 (tigm) IST13549G7 (tigm) IST14494B3 (tigm)
IST13955C7 (tigm) IST14632G5 (tigm) IST13810G7 (tigm) IST14077H2 (tigm)
IST14379G9 (tigm) IST14288E4 (tigm)
Private Clones OST369125 (lexicon) OST175400 (lexicon) OST125689 (lexicon) OST112771 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000665442 (Chr10:127496046..127496082 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000665442 (Chr10:127496046..127496082 +)
Downstram Exon
ENSMUSE00000665441 (Chr10:127533493..127533579 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon TTGGTCGTTGGAGAGAATCC Chr10:127533516..127533535 60.05 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000665442 Chr10:127496046..127496082 No primer for this exon

*** Putative Vector Insertion (Chr 10: 127496083 - 127533492) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000665441 Chr10:127533493..127533579 TTGGTCGTTGGAGAGAATCC Chr10:127533516..127533535 60.05 50
downstream ENSMUSE00000629097 Chr10:127545950..127546087 CATGGGAGACCCGTTAGTGT Chr10:127546068..127546087 59.84 55
downstream ENSMUSE00000272816 Chr10:127547811..127548404 TTGGCAGATGGGTACTGTGA Chr10:127547976..127547995 60.11 50
downstream ENSMUSE00000272811 Chr10:127549638..127549823 CAGAGAGTCAAAGGGCTCCA Chr10:127549819..127549838 60.52 55
downstream ENSMUSE00000272806 Chr10:127550519..127550737 CATCAGCTCCGCATCATCTA Chr10:127550568..127550587 59.93 50
downstream ENSMUSE00000272801 Chr10:127551390..127551839 CCTCCAGTCGTCTCTTCTCG Chr10:127551819..127551838 60.13 60
downstream ENSMUSE00000272794 Chr10:127552081..127552141 CTGGAGGGGAAGACGAACTT Chr10:127552139..127552158 60.62 55
downstream ENSMUSE00000272786 Chr10:127553117..127553225 CCTTCTTGATGCGCACTTCT Chr10:127553148..127553167 60.54 50
downstream ENSMUSE00000272778 Chr10:127553362..127553463 ACCACATTTCGGCTCAGGTA Chr10:127553384..127553403 60.52 50
downstream ENSMUSE00000471272 Chr10:127553603..127553813 GTTTGCCAGTGATTGCTTGA Chr10:127553672..127553691 59.85 45
downstream ENSMUSE00000272762 Chr10:127555611..127555711 GTCTGACTTTCTCCCCGTTG Chr10:127555698..127555717 59.7 55
downstream ENSMUSE00000272755 Chr10:127556011..127556076 GCTCTTGGTGTCTTGCTTCC Chr10:127556046..127556065 60 55
downstream ENSMUSE00000272747 Chr10:127556326..127556556 TTCCCCTTCGCTTTTACCTT Chr10:127556417..127556436 60.07 45
downstream ENSMUSE00000272740 Chr10:127556680..127556934 AGACCAGGATCATGGAGTGC Chr10:127556921..127556940 60.08 55
downstream ENSMUSE00000272733 Chr10:127558167..127558381 AGGAAGCAGCGCAGTATCTC Chr10:127558249..127558268 59.75 55
downstream ENSMUSE00000272723 Chr10:127558647..127558721 GGCCTTCAACAATCCACTTG Chr10:127558714..127558733 60.49 50
downstream ENSMUSE00000272717 Chr10:127558856..127559036 TTCCTCCATGATCCGAGAAC Chr10:127558961..127558980 60.01 50
downstream ENSMUSE00000272710 Chr10:127559124..127559183 ATATGGCGCTCTAGCTCTGG Chr10:127559170..127559189 59.6 55
downstream ENSMUSE00000272698 Chr10:127559362..127559506 CTTCCGATCCTTCCACAAAG Chr10:127559500..127559519 59.67 50
downstream ENSMUSE00000272690 Chr10:127560080..127560711 GAACTTGAGTCTGGGCTTGC Chr10:127560313..127560332 60 55
downstream ENSMUSE00000272684 Chr10:127560822..127561044 GAACTTGCTAGGGGGTCTCC Chr10:127560989..127561008 60.07 60
downstream ENSMUSE00000272674 Chr10:127561163..127561318 CCTTGAGCAGGACATCCAGT Chr10:127561225..127561244 60.26 55
downstream ENSMUSE00000272667 Chr10:127561391..127561542 GACCAGCTCATAACGCCTTC Chr10:127561451..127561470 59.84 55
downstream ENSMUSE00000272659 Chr10:127561949..127562238 TAGGGCCTTCTCCACTACCA Chr10:127562197..127562216 59.69 55
downstream ENSMUSE00000272646 Chr10:127562325..127562457 GACACGAGGGGTGATCTCAT Chr10:127562352..127562371 59.93 55
downstream ENSMUSE00000272638 Chr10:127562555..127562701 TTGGGCCGATGACAGTAAAT Chr10:127562652..127562671 60.33 45
downstream ENSMUSE00000272633 Chr10:127563074..127563297 TGGACTATCTCGGCTCCTTG Chr10:127563208..127563227 60.35 55
downstream ENSMUSE00000272627 Chr10:127563382..127563525 CATCATGGGACTCCATCTCC Chr10:127563416..127563435 60.29 55
downstream ENSMUSE00000395665 Chr10:127563644..127566359 CCTGCTGAAAAGATTGCACA Chr10:127565019..127565038 59.99 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CGCCCCTTTATTTCAACGTA Chr10:127511084..127511104 59.96 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGGTTTTGGTTGGTTGGTTT Chr10:127496074..127496094 60.1 40 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040054