Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI1066
Trapped Gene
Rbm26 (ENSMUSG00000022119)
Vector Insertion
Chr 14: 105559192 - 105559711
Public Clones AX0702 (sanger)
Private Clones OST434263 (lexicon) OST280520 (lexicon) OST278615 (lexicon) OST251763 (lexicon)
OST227115 (lexicon) OST222659 (lexicon) OST211634 (lexicon) OST187706 (lexicon)
OST59665 (lexicon) OST58757 (lexicon)
Severity of mutation (?) Insertion after 7% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000503628 (Chr14:105559712..105559830 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ATGCAGATCCATCAGCCCTA Chr14:105559806..105559825 60.59 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000503628 (Chr14:105559712..105559830 -)
Downstram Exon
ENSMUSE00000502732 (Chr14:105559055..105559191 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ATGCAGATCCATCAGCCCTA Chr14:105559806..105559825 60.59 50 CTTCAGGCTTCCTGACGATG Chr14:105559078..105559097 60.93 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000612247 Chr14:105575999..105576544 CAAGCACCTAATCCCAAAGC Chr14:105576390..105576409 59.71 50
upstream ENSMUSE00000503628 Chr14:105559712..105559830 ATGCAGATCCATCAGCCCTA Chr14:105559806..105559825 60.59 50

*** Putative Vector Insertion (Chr 14: 105559192 - 105559711) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000502732 Chr14:105559055..105559191 CTTCAGGCTTCCTGACGATG Chr14:105559078..105559097 60.93 55
downstream ENSMUSE00000493869 Chr14:105554079..105554167 TCTCGCTCTTCCTCCTTTGT Chr14:105554123..105554142 59.16 50
downstream ENSMUSE00000502164 Chr14:105552632..105552849 CGAGGAGGGTTTCGATCATA Chr14:105552762..105552781 60.03 50
downstream ENSMUSE00000501023 Chr14:105551509..105551769 CAATGACGGTAATGGTGCTG Chr14:105551607..105551626 59.99 50
downstream ENSMUSE00000500122 Chr14:105550536..105550775 TGTAAGGATCGGAGGAGGTG Chr14:105550587..105550606 60.06 55
downstream ENSMUSE00000505655 Chr14:105549966..105550106 TGGTGATGAATGCCAGTTGT Chr14:105549979..105549998 59.97 45
downstream ENSMUSE00000470369 Chr14:105549470..105549610 TTGGGGCTTCAGGATTGTAG Chr14:105549550..105549569 60.07 50
downstream ENSMUSE00000497565 Chr14:105549470..105549625 TTGGGGCTTCAGGATTGTAG Chr14:105549550..105549569 60.07 50
downstream ENSMUSE00000496450 Chr14:105543396..105543507 TTCCCCAGACCCAATAGTTC Chr14:105543409..105543428 58.84 50
downstream ENSMUSE00000495532 Chr14:105541908..105542067 CCTGGGCTGTTTGTCCTATT Chr14:105542016..105542035 59.05 50
downstream ENSMUSE00000517485 Chr14:105540413..105540577 TAAGGGCACCTTCAGGATCA Chr14:105540522..105540541 60.59 50
downstream ENSMUSE00000492951 Chr14:105539533..105539664 AAAATGGGCTGCTGGACTAA Chr14:105539611..105539630 59.71 45
downstream ENSMUSE00000432938 Chr14:105538308..105538379 ACCCAACCTGTCCTTCACAG Chr14:105538322..105538341 60 55
downstream ENSMUSE00000519162 Chr14:105531099..105531224 ACACCGTTTTTGTGAGACCA Chr14:105531166..105531185 59.03 45
downstream ENSMUSE00000509190 Chr14:105530700..105530774 TCCTGCTGAAGTTTCAGTGC Chr14:105530730..105530749 59.17 50
downstream ENSMUSE00000514490 Chr14:105529450..105529617 GAAGACAGCGTCCAGGAGAT Chr14:105529454..105529473 59.41 55
downstream ENSMUSE00000685176 Chr14:105527782..105527886 CTTCTTCTCCAGCCTGCATC Chr14:105527801..105527820 60.1 55
downstream ENSMUSE00000487174 Chr14:105523800..105524000 GGGTCGGTGATCCACTACAG Chr14:105523841..105523860 60.39 60
downstream ENSMUSE00000501222 Chr14:105520199..105520285 TGCTTCTGCTTCTGCTCTTG Chr14:105520177..105520196 59.62 50
downstream ENSMUSE00000646967 Chr14:105516203..105516316 CTTCAAATCCTGCCCTTTGA Chr14:105516253..105516272 60.18 45
downstream ENSMUSE00000646966 Chr14:105513736..105514503 TTGTGAAATCCATCGTCATCA Chr14:105514268..105514288 59.92 38.1
downstream ENSMUSE00000685169 Chr14:105508999..105509019 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGCGTTATGCATTGATCAGC Chr14:105559731..105559751 61.54 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGCGTTATGCATTGATCAGC Chr14:105559731..105559751 61.54 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000022119