Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI12993
Trapped Gene
2200001I15Rik (ENSMUSG00000043681)
Vector Insertion
Chr 14: 35165264 - 35166883
Public Clones D124C05 (ggtc) CMHD-GT_353C6-3 (cmhd) CMHD-GT_416E2-3 (cmhd) CMHD-GT_417C1-3 (cmhd)
CMHD-GT_164C12-3 (cmhd) CMHD-GT_438A12-3 (cmhd) CMHD-GT_416E11-3 (cmhd) CMHD-GT_143C11-3 (cmhd)
PST14765-NL (escells) IST12008B3 (tigm) IST12859B1 (tigm)
Private Clones OST455377 (lexicon) OST414359 (lexicon) OST398552 (lexicon) OST378243 (lexicon)
OST341038 (lexicon) OST327232 (lexicon) OST282769 (lexicon) OST247207 (lexicon)
OST245305 (lexicon) OST240785 (lexicon) OST236293 (lexicon) OST232287 (lexicon)
OST225302 (lexicon) OST224358 (lexicon) OST222415 (lexicon) OST217700 (lexicon)
OST214900 (lexicon) OST209124 (lexicon) OST200036 (lexicon) OST199553 (lexicon)
OST195298 (lexicon) OST188934 (lexicon) OST139340 (lexicon) OST124267 (lexicon)
OST109735 (lexicon) OST103138 (lexicon) OST93723 (lexicon) OST68044 (lexicon)
OST67243 (lexicon) OST63314 (lexicon) OST54095 (lexicon) OST48631 (lexicon)
OST34900 (lexicon) OST29398 (lexicon) OST28121 (lexicon) OST27903 (lexicon)
OST27892 (lexicon) OST26092 (lexicon) OST21972 (lexicon) OST19422 (lexicon)
OST16039 (lexicon)
Severity of mutation (?) Insertion after 52% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000407956 (Chr14:35166884..35166946 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CAGTGGAAGAGGTGGTGAGC Chr14:35166921..35166940 60.86 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000407956 (Chr14:35166884..35166946 -)
Downstram Exon
ENSMUSE00000354129 (Chr14:35165073..35165263 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CAGTGGAAGAGGTGGTGAGC Chr14:35166921..35166940 60.86 60 GATGGTGTGGGTGACCTTCT Chr14:35165159..35165178 59.82 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000372767 Chr14:35168472..35168581 No primer for this exon
upstream ENSMUSE00000407956 Chr14:35166884..35166946 CAGTGGAAGAGGTGGTGAGC Chr14:35166921..35166940 60.86 60

*** Putative Vector Insertion (Chr 14: 35165264 - 35166883) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000354129 Chr14:35165073..35165263 GATGGTGTGGGTGACCTTCT Chr14:35165159..35165178 59.82 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGGGTAAGGCTGAGGTTGCT Chr14:35166865..35166885 60.27 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGGGTAAGGCTGAGGTTGCT Chr14:35166865..35166885 60.27 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ATAATCGCCTTGCAGCACAT Chr14:35166877..35166897 60.64 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CAGTGGAAGAGGTGGTGAGC Chr14:35166919..35166939 60.86 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000043681