Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI29935
Trapped Gene
Casz1 (ENSMUSG00000028977)
Vector Insertion
Chr 4: 148275853 - 148302607
Public Clones (sanger) D101D10 (ggtc) D188B08 (ggtc) IST13247F2 (tigm) IST12271C9 (tigm)
IST10401G9 (tigm) IST12893E9 (tigm) IST11859E4 (tigm) IST10153H11 (tigm)
IST11958E1 (tigm) IST14854G8 (tigm) IST10091E9 (tigm) IST15037G10 (tigm)
IST10131H9 (tigm) IST13333B4 (tigm) IST10794H2 (tigm) IST10163A8 (tigm)
IST14609B8 (tigm) IST12832E4 (tigm) IST12368G12 (tigm) IST13042F4 (tigm)
IST12596G10 (tigm) IST11859E4 (tigm) IST10323C8 (tigm) IST11716H4 (tigm)
IST14711D9 (tigm) IST10787B11 (tigm) IST10038C1BBR1 (tigm) IST12368G12 (tigm)
IST12827F12 (tigm) IST12288C3 (tigm) IST12288C3 (tigm) IST12907H4 (tigm)
IST10153H11 (tigm) IST10047C4 (tigm) IST11038H11 (tigm) IST14976G2 (tigm)
IST10827F6 (tigm) IST11595B7 (tigm) IST10163A8 (tigm) IST12753F5 (tigm)
IST11633G4 (tigm) IST11491E3 (tigm) IST11335B1 (tigm) IST14615E4 (tigm)
IST14854G8 (tigm) IST10912C9 (tigm) IST11792C7 (tigm) IST10827F6 (tigm)
IST15037G10 (tigm) IST14841B10 (tigm) IST12667G12 (tigm) IST13108C1 (tigm)
IST13768H7 (tigm) IST11038H11 (tigm) IST14590A9 (tigm) IST14904C8 (tigm)
IST10241A5 (tigm) IST10038C1 (tigm) IST12668G11 (tigm) IST14976G2 (tigm)
IST14615E4 (tigm) IST12417D1 (tigm) IST11028C11 (tigm) IST12335H9 (tigm)
IST12271C9 (tigm) IST14841B10 (tigm) IST13447E9 (tigm) IST11028C11 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000715441 (Chr4:148275814..148275852 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AGGAGCGGAGAATGGATCTT Chr4:148275826..148275845 60.18 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000715441 (Chr4:148275814..148275852 +)
Downstram Exon
ENSMUSE00000667183 (Chr4:148302608..148302623 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AGGAGCGGAGAATGGATCTT Chr4:148275826..148275845 60.18 50 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000523894 Chr4:148178501..148178623 ACACATTTTTCCCCGGACTT Chr4:148178573..148178592 60.59 45
upstream ENSMUSE00000667185 Chr4:148178538..148178623 ACACATTTTTCCCCGGACTT Chr4:148178573..148178592 60.59 45
upstream ENSMUSE00000523893 Chr4:148212375..148212529 CTTCGGACCTTGGACTCTTG Chr4:148212500..148212519 59.84 55
upstream ENSMUSE00000523892 Chr4:148264431..148264485 GAATCTCTAGGACCCCGTGA Chr4:148264465..148264484 59.09 55
upstream ENSMUSE00000715441 Chr4:148275814..148275852 AGGAGCGGAGAATGGATCTT Chr4:148275826..148275845 60.18 50
upstream ENSMUSE00000718495 Chr4:148275814..148275852 AGGAGCGGAGAATGGATCTT Chr4:148275826..148275845 60.18 50

*** Putative Vector Insertion (Chr 4: 148275853 - 148302607) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000667183 Chr4:148302608..148302623 No primer for this exon
downstream ENSMUSE00000523890 Chr4:148303106..148303591 CTGCATGGTCTTCTTCGTCA Chr4:148303498..148303517 59.98 50
downstream ENSMUSE00000667184 Chr4:148303106..148303591 CTGCATGGTCTTCTTCGTCA Chr4:148303498..148303517 59.98 50
downstream ENSMUSE00000595328 Chr4:148306867..148307701 CCCCGAACGTCGTACTTAGA Chr4:148307503..148307522 60.12 55
downstream ENSMUSE00000630262 Chr4:148306867..148307701 CCCCGAACGTCGTACTTAGA Chr4:148307503..148307522 60.12 55
downstream ENSMUSE00000523888 Chr4:148308690..148308758 ATCTTCGGTGACAGCTGGTT Chr4:148308732..148308751 59.73 50
downstream ENSMUSE00000595327 Chr4:148308690..148308758 ATCTTCGGTGACAGCTGGTT Chr4:148308732..148308751 59.73 50
downstream ENSMUSE00000523887 Chr4:148310275..148310365 TACTGGTAGGCGCAGTGGAT Chr4:148310325..148310344 60.68 55
downstream ENSMUSE00000595326 Chr4:148310275..148310365 TACTGGTAGGCGCAGTGGAT Chr4:148310325..148310344 60.68 55
downstream ENSMUSE00000523886 Chr4:148311068..148311232 GCAGTGGTAGTGGGTGCTCT Chr4:148311229..148311248 60.33 60
downstream ENSMUSE00000595325 Chr4:148311068..148311232 GCAGTGGTAGTGGGTGCTCT Chr4:148311229..148311248 60.33 60
downstream ENSMUSE00000523885 Chr4:148312250..148312422 ATCGTTGATGAGCTGGGTGT Chr4:148312339..148312358 60.54 50
downstream ENSMUSE00000595324 Chr4:148312250..148312422 ATCGTTGATGAGCTGGGTGT Chr4:148312339..148312358 60.54 50
downstream ENSMUSE00000523884 Chr4:148312584..148313431 GAGGTCATCGTTGCTGGATT Chr4:148312923..148312942 60.08 50
downstream ENSMUSE00000595323 Chr4:148312584..148313431 GAGGTCATCGTTGCTGGATT Chr4:148312923..148312942 60.08 50
downstream ENSMUSE00000387510 Chr4:148315391..148315523 GATCCTTCACGGTCAGGTCT Chr4:148315522..148315541 59.1 55
downstream ENSMUSE00000667181 Chr4:148315391..148315523 GATCCTTCACGGTCAGGTCT Chr4:148315522..148315541 59.1 55
downstream ENSMUSE00000327624 Chr4:148315776..148315839 GATGAATTTGCCGAGACTGC Chr4:148315817..148315836 60.75 50
downstream ENSMUSE00000667180 Chr4:148315776..148315839 GATGAATTTGCCGAGACTGC Chr4:148315817..148315836 60.75 50
downstream ENSMUSE00000390222 Chr4:148317012..148317166 CCAAGGCTCTGACAGCTTCT Chr4:148317152..148317171 59.74 55
downstream ENSMUSE00000667179 Chr4:148317012..148317166 CCAAGGCTCTGACAGCTTCT Chr4:148317152..148317171 59.74 55
downstream ENSMUSE00000327610 Chr4:148317312..148317434 ACCGCACTCCTCCACTACAC Chr4:148317396..148317415 60.18 60
downstream ENSMUSE00000184048 Chr4:148318367..148319238 GGGACTCACTTGTCCTGGAA Chr4:148318717..148318736 60.09 55
downstream ENSMUSE00000667178 Chr4:148318367..148318705 CATCTGGGGTATGGTGGAAG Chr4:148318598..148318617 60.19 55
downstream ENSMUSE00000667177 Chr4:148320132..148320330 GTGGAACTTGCTGGCGTATT Chr4:148320180..148320199 60.14 50
downstream ENSMUSE00000667176 Chr4:148321099..148321270 GGTGGTGATGTTGGTGACAA Chr4:148321176..148321195 60.27 50
downstream ENSMUSE00000345076 Chr4:148322633..148322784 TGGCTGTTCACCTGGTTGTA Chr4:148322663..148322682 60.15 50
downstream ENSMUSE00000383862 Chr4:148322902..148323043 CTGTCTCGGCATCCATTAGG Chr4:148322935..148322954 60.62 55
downstream ENSMUSE00000407170 Chr4:148325554..148326680 GCAGTGGTAGTGGGTGACCT Chr4:148325771..148325790 60.03 60
downstream ENSMUSE00000708499 Chr4:148325554..148328998 CTAGCCAGAACCTGGAGTGC Chr4:148328019..148328038 60.01 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTGACAACGCTTGTCCTTGA Chr4:148287836..148287856 60.03 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTGACAACGCTTGTCCTTGA Chr4:148287836..148287856 60.03 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028977