Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI1163
Trapped Gene
Banp (ENSMUSG00000025316)
Vector Insertion
Chr 8: 124474549 - 124498326
Public Clones (sanger) XT0384 (sanger) CD0121 (sanger) AZ0212 (sanger) XL817 (baygenomics)
XI250 (baygenomics) D040H01 (ggtc) D044B08 (ggtc) P144E11 (ggtc)
P138D01 (ggtc) D088D01 (ggtc) (ggtc) D044B08 (ggtc) D044B08 (ggtc)
A20018 (ggtc) P126D08 (ggtc) D018B03 (ggtc) D088D01 (ggtc) (ggtc)
P126D08 (ggtc) P138D01 (ggtc) D018B03 (ggtc) P014E12 (ggtc) D143E12 (ggtc)
PST7022-NR (escells) PST14168-NR (escells) PST7216-NR (escells) PST4695-NR (escells)
IST14395H1 (tigm) IST14929F11 (tigm) IST14631E5 (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
ENSMUSE00000477565 (Chr8:124474447..124474548 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCGACAAACACCACGAGAAT Chr8:124474514..124474533 60.95 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000477565 (Chr8:124474447..124474548 +)
Downstram Exon
ENSMUSE00000711374 (Chr8:124498327..124498465 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCGACAAACACCACGAGAAT Chr8:124474514..124474533 60.95 50 TTCCACTGCAATCTGAACCA Chr8:124498446..124498465 60.24 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000477565 Chr8:124474447..124474548 CCGACAAACACCACGAGAAT Chr8:124474514..124474533 60.95 50

*** Putative Vector Insertion (Chr 8: 124474549 - 124498326) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000711374 Chr8:124498327..124498465 TTCCACTGCAATCTGAACCA Chr8:124498446..124498465 60.24 45
downstream ENSMUSE00000719259 Chr8:124498327..124498465 TTCCACTGCAATCTGAACCA Chr8:124498446..124498465 60.24 45
downstream ENSMUSE00000605760 Chr8:124499800..124499891 GGTCCTGGCAATTGATCTCT Chr8:124499883..124499902 59.09 50
downstream ENSMUSE00000605766 Chr8:124499800..124499891 GGTCCTGGCAATTGATCTCT Chr8:124499883..124499902 59.09 50
downstream ENSMUSE00000605759 Chr8:124502455..124502654 AATGCTATCCAACCGCAAAC Chr8:124502508..124502527 59.97 45
downstream ENSMUSE00000605765 Chr8:124502455..124502654 AATGCTATCCAACCGCAAAC Chr8:124502508..124502527 59.97 45
downstream ENSMUSE00000579685 Chr8:124513855..124513971 TTCTGCCGATCATTGTTGAG Chr8:124513902..124513921 59.8 45
downstream ENSMUSE00000634005 Chr8:124513855..124513971 TTCTGCCGATCATTGTTGAG Chr8:124513902..124513921 59.8 45
downstream ENSMUSE00000605758 Chr8:124515428..124515603 GGGTGATGAGTGTGACGTTG Chr8:124515594..124515613 60.01 55
downstream ENSMUSE00000605764 Chr8:124515428..124515603 GGGTGATGAGTGTGACGTTG Chr8:124515594..124515613 60.01 55
downstream ENSMUSE00000605757 Chr8:124520940..124521179 GATGTGCAACATGTCGGAAG Chr8:124521034..124521053 60.12 50
downstream ENSMUSE00000605763 Chr8:124520940..124521179 GATGTGCAACATGTCGGAAG Chr8:124521034..124521053 60.12 50
downstream ENSMUSE00000579681 Chr8:124524864..124525031 GCTCTGCTTGATCCGATACC Chr8:124524925..124524944 59.8 55
downstream ENSMUSE00000579677 Chr8:124529452..124529582 ATCTGGTGGATCTGGACCTG Chr8:124529560..124529579 59.92 55
downstream ENSMUSE00000149661 Chr8:124530991..124531062 TCCTGTGTGATCTGCACCTG Chr8:124531058..124531077 60.9 55
downstream ENSMUSE00000149660 Chr8:124531653..124531691 GACCCACATGATGGATCTGC Chr8:124531683..124531702 61.34 55
downstream ENSMUSE00000149654 Chr8:124544419..124544544 GAGTCACCGCTGACAGGAAT Chr8:124544465..124544484 60.27 55
downstream ENSMUSE00000149658 Chr8:124547903..124548046 GGAGAGGCGACCCATCTACT Chr8:124547981..124548000 60.62 60
downstream ENSMUSE00000452776 Chr8:124549464..124549969 AGAACCTGCAGTTGCTTGCT Chr8:124549633..124549652 60.2 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTACACGGGTAATCGCCTTG Chr8:124495591..124495611 60.51 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCCTCCCAGTACAGCTTTCA Chr8:124495560..124495580 60.4 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025316