Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI474
Trapped Gene
Chm (ENSMUSG00000025531)
Vector Insertion
Chr X: 110273180 - 110299049
Public Clones DB0164 (sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) XH346 (baygenomics) XG523 (baygenomics)
P013A10 (ggtc) IST11647G1 (tigm)
Private Clones OST64217 (lexicon)
Severity of mutation (?) Insertion after 3% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000695401 (ChrX:110299050..110299124 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCTCCCTTCGGACTTTGATG ChrX:110299068..110299087 60.19 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000695401 (ChrX:110299050..110299124 -)
Downstram Exon
ENSMUSE00000151436 (ChrX:110273113..110273179 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCTCCCTTCGGACTTTGATG ChrX:110299068..110299087 60.19 50 CAATGATGGATTCAGGCAGA ChrX:110273137..110273156 59.6 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000695401 ChrX:110299050..110299124 TCTCCCTTCGGACTTTGATG ChrX:110299068..110299087 60.19 50

*** Putative Vector Insertion (Chr X: 110273180 - 110299049) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000151436 ChrX:110273113..110273179 CAATGATGGATTCAGGCAGA ChrX:110273137..110273156 59.6 45
downstream ENSMUSE00000151428 ChrX:110254323..110254395 GGCCCAGTTTCCTCCATAGT ChrX:110254346..110254365 60.33 55
downstream ENSMUSE00000295488 ChrX:110252945..110253069 TGTTGAATTGTTTTGTCCTTGC ChrX:110252947..110252968 60.02 36.36
downstream ENSMUSE00000295483 ChrX:110229625..110230039 CAGTGCACCAGCTTCTTCAA ChrX:110229978..110229997 60.17 50
downstream ENSMUSE00000151440 ChrX:110226158..110226274 CGAAATGCAAGAATCCTCGT ChrX:110226155..110226174 60.21 45
downstream ENSMUSE00000295473 ChrX:110225538..110225658 CTCATCGGGATGGTCTTCAT ChrX:110225523..110225542 59.89 50
downstream ENSMUSE00000295468 ChrX:110223785..110224010 GCAATTGAGTGCAGGACAAA ChrX:110223904..110223923 59.85 45
downstream ENSMUSE00000151435 ChrX:110193747..110193824 ATTCCACCAAACACAGCACA ChrX:110193779..110193798 60.01 45
downstream ENSMUSE00000151434 ChrX:110185526..110185630 No primer for this exon
downstream ENSMUSE00000295458 ChrX:110183188..110183251 ATCAGGACTGCCCTGGAAAT ChrX:110183206..110183225 60.85 50
downstream ENSMUSE00000295453 ChrX:110178456..110178552 TGACTCTTCTGCTGGCACTG ChrX:110178498..110178517 60.33 55
downstream ENSMUSE00000295450 ChrX:110166671..110166769 No primer for this exon
downstream ENSMUSE00000151438 ChrX:110160945..110161105 GGGCCAGAGCACACATAGAC ChrX:110160960..110160979 60.69 60
downstream ENSMUSE00000653896 ChrX:110154201..110157244 TGATTGCACCAAAAGGATGA ChrX:110155034..110155053 60.05 40

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATAATCGCCTTGCAGCACAT ChrX:110277979..110277999 60.64 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CACTCCGTGACTGGGAAAAC ChrX:110286983..110287003 60.54 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 ATAATCGCCTTGCAGCACAT ChrX:110287055..110287075 60.64 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CAGAAATCGTGACTGGGAAAA ChrX:110287060..110287081 60.1 42.86 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025531