Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI11316
Trapped Gene
Sumf2 (ENSMUSG00000025538)
Vector Insertion
Chr 5: 130322963 - 130325776
Public Clones D107A05 (ggtc) D107B06 (ggtc) D107B06 (ggtc) G066C11 (ggtc) IST10131C7 (tigm)
IST11691B8 (tigm)
Private Clones OST450359 (lexicon) OST378099 (lexicon) OST309010 (lexicon) OST297947 (lexicon)
OST246264 (lexicon) OST239852 (lexicon) OST232282 (lexicon) OST182698 (lexicon)
OST146532 (lexicon) OST145358 (lexicon) OST145355 (lexicon) OST144777 (lexicon)
OST144652 (lexicon) OST144083 (lexicon) OST144012 (lexicon) OST142784 (lexicon)
OST102687 (lexicon)
Severity of mutation (?) Insertion after 10% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000592013 (Chr5:130322872..130322962 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ATGCGCTCTGAGTTCTGGTT Chr5:130322872..130322891 60.02 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000592013 (Chr5:130322872..130322962 +)
Downstram Exon
ENSMUSE00000592012 (Chr5:130325777..130325933 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ATGCGCTCTGAGTTCTGGTT Chr5:130322872..130322891 60.02 50 CTTCACCGTCTCTGCCATCT Chr5:130325866..130325885 60.41 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000592013 Chr5:130322872..130322962 ATGCGCTCTGAGTTCTGGTT Chr5:130322872..130322891 60.02 50

*** Putative Vector Insertion (Chr 5: 130322963 - 130325776) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000592012 Chr5:130325777..130325933 CTTCACCGTCTCTGCCATCT Chr5:130325866..130325885 60.41 55
downstream ENSMUSE00000504188 Chr5:130328750..130328861 CCTCAAAGACGAAGCTCCAC Chr5:130328820..130328839 59.99 55
downstream ENSMUSE00000504952 Chr5:130329899..130329943 No primer for this exon
downstream ENSMUSE00000505982 Chr5:130330564..130330714 CTCCAGTTTCTCTCGGATGC Chr5:130330605..130330624 59.95 55
downstream ENSMUSE00000311153 Chr5:130334116..130334171 GTTCCCCCATGGATAAACCT Chr5:130334141..130334160 59.88 50
downstream ENSMUSE00000311144 Chr5:130335713..130335797 TTTGTCACCTTTGGGGAACT Chr5:130335739..130335758 59.42 45
downstream ENSMUSE00000151506 Chr5:130335946..130336090 GGTTGGTATGTGGACGCTGT Chr5:130336003..130336022 60.84 55
downstream ENSMUSE00000378483 Chr5:130338515..130339928 TGCAGTCCGAGTGTTCTTTG Chr5:130338750..130338769 60.03 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGTGTGTGGCTCTGTGCCTA Chr5:130322967..130322987 59.49 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCTTGAACACCTGAACGTGA Chr5:130322999..130323019 59.72 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025538