Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI15861
Trapped Gene
Ndufc1 (ENSMUSG00000037152)
Vector Insertion
Chr 3: 51212171 - 51212785
Public Clones not available
Private Clones OST471365 (lexicon) OST429656 (lexicon) OST377667 (lexicon) OST298980 (lexicon)
OST261070 (lexicon) OST147816 (lexicon) OST124761 (lexicon) OST96501 (lexicon)
OST95113 (lexicon) OST52114 (lexicon) OST35626 (lexicon) OST29678 (lexicon)
OST19867 (lexicon) OST17870 (lexicon) OST17321 (lexicon)
Severity of mutation (?) Insertion after 30% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000568267 (Chr3:51212786..51212860 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTAGTGCTGCGCTCGTTTTC Chr3:51212821..51212840 61.11 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000568267 (Chr3:51212786..51212860 -)
Downstram Exon
ENSMUSE00000265671 (Chr3:51212067..51212170 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTAGTGCTGCGCTCGTTTTC Chr3:51212821..51212840 61.11 55 CCCGGACATAGAACTTCGAC Chr3:51212119..51212138 59.55 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000568267 Chr3:51212786..51212860 GTAGTGCTGCGCTCGTTTTC Chr3:51212821..51212840 61.11 55

*** Putative Vector Insertion (Chr 3: 51212171 - 51212785) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000265671 Chr3:51212067..51212170 CCCGGACATAGAACTTCGAC Chr3:51212119..51212138 59.55 55
downstream ENSMUSE00000376548 Chr3:51211258..51211334 No primer for this exon
downstream ENSMUSE00000512971 Chr3:51209401..51209541 ATCCGTCACTGAGGGTGAAT Chr3:51209464..51209483 59.38 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATCCAATAATCGCCTTGCAG Chr3:51212720..51212740 60.06 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATCCAACGTGACTGGGAAAA Chr3:51212720..51212740 60.35 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000037152