Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI12940
Trapped Gene
A830080D01Rik (ENSMUSG00000044150)
Vector Insertion
Chr X: 155986248 - 155989682
Public Clones CMHD-GT_352E3-3 (cmhd)
Private Clones OST347227 (lexicon) OST312851 (lexicon) OST143975 (lexicon) OST142003 (lexicon)
OST119309 (lexicon) OST109431 (lexicon) OST66675 (lexicon) OST61780 (lexicon)
OST51055 (lexicon)
Severity of mutation (?) Insertion after 2% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000402605 (ChrX:155986171..155986247 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AAAGTGGATCAGGCAGCTCA ChrX:155986176..155986195 60.94 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000402605 (ChrX:155986171..155986247 +)
Downstram Exon
ENSMUSE00000343320 (ChrX:155989683..155990306 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AAAGTGGATCAGGCAGCTCA ChrX:155986176..155986195 60.94 50 GAGCCTCTTCTGGGTGACTG ChrX:155990273..155990292 59.99 60

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000440515 ChrX:155970600..155970767 GGCTCTGGTGACGACTTCTC ChrX:155970742..155970761 59.99 60
upstream ENSMUSE00000402605 ChrX:155986171..155986247 AAAGTGGATCAGGCAGCTCA ChrX:155986176..155986195 60.94 50
upstream ENSMUSE00000714689 ChrX:155986171..155986247 AAAGTGGATCAGGCAGCTCA ChrX:155986176..155986195 60.94 50

*** Putative Vector Insertion (Chr X: 155986248 - 155989682) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000343320 ChrX:155989683..155990306 GAGCCTCTTCTGGGTGACTG ChrX:155990273..155990292 59.99 60
downstream ENSMUSE00000372666 ChrX:155991176..155991826 GTCATTGCAAGGCTCCAAAT ChrX:155991668..155991687 60.08 45
downstream ENSMUSE00000410616 ChrX:155993407..155993582 TTTTGCCAATAGCAACCAAA ChrX:155993471..155993490 59.19 35
downstream ENSMUSE00000359817 ChrX:155995375..155995489 No primer for this exon
downstream ENSMUSE00000397778 ChrX:155996267..155996330 No primer for this exon
downstream ENSMUSE00000388572 ChrX:155997770..155997885 CGCTCTTTTCTCCTTCTCTCA ChrX:155997836..155997856 58.94 47.62
downstream ENSMUSE00000691768 ChrX:156004360..156004474 TTGAAATCCATCAGCACGAA ChrX:156004420..156004439 60.2 40
downstream ENSMUSE00000543676 ChrX:156005851..156005946 TCAATGGCATCTTTTCTCTGC ChrX:156005884..156005904 60.35 42.86
downstream ENSMUSE00000691767 ChrX:156005851..156005946 TCAATGGCATCTTTTCTCTGC ChrX:156005884..156005904 60.35 42.86
downstream ENSMUSE00000543675 ChrX:156012877..156013029 CAAACCGTAAGCGCTGGTAT ChrX:156012973..156012992 60.15 50
downstream ENSMUSE00000691766 ChrX:156012877..156013029 CAAACCGTAAGCGCTGGTAT ChrX:156012973..156012992 60.15 50
downstream ENSMUSE00000543674 ChrX:156030003..156031013 AACAAAGAGTGCCCCTCAAA ChrX:156030266..156030285 59.71 45
downstream ENSMUSE00000691765 ChrX:156030003..156031013 AACAAAGAGTGCCCCTCAAA ChrX:156030266..156030285 59.71 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CACAGAGAGCATTCTCCCATC ChrX:155986214..155986235 59.82 52.38 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CACAGAGAGCATTCTCCCATC ChrX:155986214..155986235 59.82 52.38 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000044150