Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16029
Trapped Gene
1110031B06Rik (ENSMUSG00000009894)
Vector Insertion
Chr 11: 59221313 - 59235051
Public Clones CMHD-GT_440H11-3 (cmhd) CMHD-GT_297H9-3 (cmhd) CMHD-GT_397D3-3 (cmhd) CMHD-GT_298B12-3 (cmhd)
CMHD-GT_365F1-3 (cmhd) CMHD-GT_502E12-3 (cmhd)
Private Clones OST467610 (lexicon) OST23069 (lexicon) OST19770 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000441513 (Chr11:59235052..59235132 -)
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
ENSMUSE00000441513 (Chr11:59235052..59235132 -)
Downstram Exon
ENSMUSE00000393209 (Chr11:59221166..59221312 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000441535 Chr11:59263417..59263511 No primer for this exon
upstream ENSMUSE00000715576 Chr11:59263417..59263509 No primer for this exon
upstream ENSMUSE00000345434 Chr11:59251480..59252015 No primer for this exon
upstream ENSMUSE00000709603 Chr11:59251480..59252015 No primer for this exon
upstream ENSMUSE00000441522 Chr11:59241880..59242315 No primer for this exon
upstream ENSMUSE00000441519 Chr11:59241843..59241878 No primer for this exon
upstream ENSMUSE00000713389 Chr11:59241843..59242315 No primer for this exon
upstream ENSMUSE00000715407 Chr11:59241843..59242315 No primer for this exon
upstream ENSMUSE00000652957 Chr11:59235134..59235151 No primer for this exon
upstream ENSMUSE00000441513 Chr11:59235052..59235132 No primer for this exon
upstream ENSMUSE00000106296 Chr11:59235027..59235151 No primer for this exon

*** Putative Vector Insertion (Chr 11: 59221313 - 59235051) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000393209 Chr11:59221166..59221312 No primer for this exon
downstream ENSMUSE00000706050 Chr11:59220646..59220735 No primer for this exon
downstream ENSMUSE00000708109 Chr11:59220646..59220735 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GTGTCACTTTGGGAGGTTCC Chr11:59229006..59229026 59.4 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGTCACTTTGGGAGGTTCC Chr11:59229006..59229026 59.4 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000009894