Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16249
Trapped Gene
Slc25a36 (ENSMUSG00000032449)
Vector Insertion
Chr 9: 96993597 - 96997521
Public Clones (sanger)
Private Clones OST464533 (lexicon) OST367802 (lexicon) OST220855 (lexicon) OST208248 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000583557 (Chr9:96997522..96997599 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCTCGCTCGTTGTTTAGAGG Chr9:96997558..96997577 60.01 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000583557 (Chr9:96997522..96997599 -)
Downstram Exon
ENSMUSE00000583556 (Chr9:96993496..96993596 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCTCGCTCGTTGTTTAGAGG Chr9:96997558..96997577 60.01 55 TGCAGTTTGAATAAGCAGCAA Chr9:96993543..96993563 59.64 38.1

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000530910 Chr9:97011330..97011576 CTCCGACTCCTCACGACTCT Chr9:97011554..97011573 59.58 60
upstream ENSMUSE00000231837 Chr9:97000494..97000658 CCCTGGACCTCTTCATTGTC Chr9:97000498..97000517 59.51 55
upstream ENSMUSE00000583557 Chr9:96997522..96997599 CCTCGCTCGTTGTTTAGAGG Chr9:96997558..96997577 60.01 55

*** Putative Vector Insertion (Chr 9: 96993597 - 96997521) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000583556 Chr9:96993496..96993596 TGCAGTTTGAATAAGCAGCAA Chr9:96993543..96993563 59.64 38.1
downstream ENSMUSE00000219791 Chr9:96985476..96985542 TAAGCCAAATGGGGTTTGTT Chr9:96985482..96985501 59.31 40
downstream ENSMUSE00000530909 Chr9:96984812..96984846 No primer for this exon
downstream ENSMUSE00000219793 Chr9:96980612..96980901 GTGGCACAGGTTTTTGAGGT Chr9:96980610..96980629 60.01 50
downstream ENSMUSE00000332885 Chr9:96978166..96979658 GCTGCTATCCGTTGAGAAGG Chr9:96979439..96979458 59.98 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGGTAATCGCCTTGCAGCAC Chr9:96994453..96994473 62.6 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTATTTCAAGGCGTGACTGG Chr9:96994461..96994481 58.77 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TCAGGGCTATCCTGGAAAAA Chr9:96994582..96994602 59.64 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 AGTTCGTGACTGGGAAAACC Chr9:96994533..96994553 59.04 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032449