Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI28025
Trapped Gene
Qk (ENSMUSG00000062078)
Vector Insertion
Chr 17: 10402497 - 10405458
Public Clones IST15051E4 (tigm)
Private Clones OST42152 (lexicon)
Severity of mutation (?) Insertion after 96% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000703889 (Chr17:10405459..10405472 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000703889 (Chr17:10405459..10405472 -)
Downstram Exon
ENSMUSE00000658323 (Chr17:10401473..10402496 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon GCATGATGCATTGTCACACA Chr17:10402008..10402027 60.13 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000658322 Chr17:10512187..10512315 CCTGAACTGAGGCGAACTCC Chr17:10512220..10512239 62.28 60
upstream ENSMUSE00000569062 Chr17:10511597..10512245 GCAGCTGATGAACGACAAGA Chr17:10511663..10511682 60.14 50
upstream ENSMUSE00000658321 Chr17:10511597..10511758 GCAGCTGATGAACGACAAGA Chr17:10511663..10511682 60.14 50
upstream ENSMUSE00000658325 Chr17:10511597..10511738 GCAGCTGATGAACGACAAGA Chr17:10511663..10511682 60.14 50
upstream ENSMUSE00000269846 Chr17:10475704..10475846 GTGGGACCCATTGTTCAGTT Chr17:10475744..10475763 59.68 50
upstream ENSMUSE00000269819 Chr17:10466812..10466928 TTTGTTGGGAGAATCCTTGG Chr17:10466903..10466922 59.9 45
upstream ENSMUSE00000269810 Chr17:10431758..10431901 GCTGAAGAGAGCGGTTGAAG Chr17:10431784..10431803 60.28 55
upstream ENSMUSE00000434071 Chr17:10410581..10410668 CACCTACAGAGACGCCAACA Chr17:10410590..10410609 59.9 55
upstream ENSMUSE00000434057 Chr17:10409025..10409324 GGCCCTACCATAATGCCTTT Chr17:10409198..10409217 60.17 50
upstream ENSMUSE00000658324 Chr17:10406224..10406298 AAAGGATTGTGACCGCAGAC Chr17:10406228..10406247 60.12 50
upstream ENSMUSE00000703889 Chr17:10405459..10405472 No primer for this exon
upstream ENSMUSE00000508229 Chr17:10403055..10408339 ACACGACCAGTCAATGTGGA Chr17:10408238..10408257 60.01 50
upstream ENSMUSE00000351504 Chr17:10403044..10407059 AGGCCAACCTGTTTGAAATG Chr17:10406477..10406496 59.97 45

*** Putative Vector Insertion (Chr 17: 10402497 - 10405458) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000658323 Chr17:10401473..10402496 GCATGATGCATTGTCACACA Chr17:10402008..10402027 60.13 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TATGTAATCGCCTTGCAGCAC Chr17:10402390..10402411 61.17 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TATGCGTGACTGGGAAAACC Chr17:10402391..10402411 60.89 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CCACCGGCAACTAACCTATG Chr17:10402472..10402492 60.38 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCACCGGCAACTAACCTATG Chr17:10405472..10405492 60.38 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000062078