Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI33980
Trapped Gene
Sept6 (ENSMUSG00000050379)
Vector Insertion
Chr X: 34443351 - 34453250
Public Clones IST14947C3 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000449153 (ChrX:34453240..34453249 -)
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
ENSMUSE00000449153 (ChrX:34453240..34453249 -)
Downstram Exon
ENSMUSE00000702142 (ChrX:34443352..34443358 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000702129 ChrX:34531671..34531684 No primer for this exon
upstream ENSMUSE00000404329 ChrX:34529374..34529476 GAGCTCTTCTGTTTCCTGTGC ChrX:34529456..34529476 59.23 52.38
upstream ENSMUSE00000556212 ChrX:34529374..34529476 GAGCTCTTCTGTTTCCTGTGC ChrX:34529456..34529476 59.23 52.38
upstream ENSMUSE00000702133 ChrX:34529374..34529651 CGGAGGAGCTCTTCTGTTTC ChrX:34529462..34529481 59.16 55
upstream ENSMUSE00000702141 ChrX:34515432..34515447 No primer for this exon
upstream ENSMUSE00000702140 ChrX:34515407..34515417 No primer for this exon
upstream ENSMUSE00000333166 ChrX:34515058..34515172 GGCGAAGATTGTCGAACTGT ChrX:34515153..34515172 60.26 50
upstream ENSMUSE00000702139 ChrX:34515058..34515172 GGCGAAGATTGTCGAACTGT ChrX:34515153..34515172 60.26 50
upstream ENSMUSE00000702138 ChrX:34506591..34506786 CGCTCATGGATACCCTGTTT ChrX:34506743..34506762 59.96 50
upstream ENSMUSE00000708801 ChrX:34506591..34506786 CGCTCATGGATACCCTGTTT ChrX:34506743..34506762 59.96 50
upstream ENSMUSE00000721151 ChrX:34506591..34506786 CGCTCATGGATACCCTGTTT ChrX:34506743..34506762 59.96 50
upstream ENSMUSE00000393823 ChrX:34486563..34486749 CTACAAGCCCATCGTGGAAT ChrX:34486730..34486749 59.96 50
upstream ENSMUSE00000702124 ChrX:34486563..34486749 CTACAAGCCCATCGTGGAAT ChrX:34486730..34486749 59.96 50
upstream ENSMUSE00000344295 ChrX:34482050..34482211 AGTCGGTGAGCGAGATCAAT ChrX:34482062..34482081 59.83 50
upstream ENSMUSE00000702123 ChrX:34482050..34482211 AGTCGGTGAGCGAGATCAAT ChrX:34482062..34482081 59.83 50
upstream ENSMUSE00000624312 ChrX:34474379..34474475 GTTGTTGGCAGCACAGAAGA ChrX:34474438..34474457 60.03 50
upstream ENSMUSE00000702122 ChrX:34474379..34474475 GTTGTTGGCAGCACAGAAGA ChrX:34474438..34474457 60.03 50
upstream ENSMUSE00000624311 ChrX:34470094..34470262 AATTGTACCGCCGCTGTAAG ChrX:34470144..34470163 60.15 50
upstream ENSMUSE00000702119 ChrX:34470094..34470262 AATTGTACCGCCGCTGTAAG ChrX:34470144..34470163 60.15 50
upstream ENSMUSE00000702115 ChrX:34466777..34466909 GAGAAAGAAGCGGAGCTCAA ChrX:34466793..34466812 59.84 50
upstream ENSMUSE00000702145 ChrX:34466777..34466909 GAGAAAGAAGCGGAGCTCAA ChrX:34466793..34466812 59.84 50
upstream ENSMUSE00000656324 ChrX:34462835..34463025 AAATGAACGCCTTCAAGCAG ChrX:34462921..34462940 60.39 45
upstream ENSMUSE00000656329 ChrX:34462835..34463025 AAATGAACGCCTTCAAGCAG ChrX:34462921..34462940 60.39 45
upstream ENSMUSE00000656322 ChrX:34460364..34460408 AACTCTGCTGTTTGCTGCAT ChrX:34460387..34460406 58.68 45
upstream ENSMUSE00000707311 ChrX:34460364..34460408 AACTCTGCTGTTTGCTGCAT ChrX:34460387..34460406 58.68 45
upstream ENSMUSE00000707310 ChrX:34455828..34456540 TATTCACACCAAGCCCTTCC ChrX:34455931..34455950 59.93 50
upstream ENSMUSE00000702137 ChrX:34455318..34455342 AACCCATGGCTGTGTATTGA ChrX:34455322..34455341 58.85 45
upstream ENSMUSE00000656321 ChrX:34453441..34456540 GGCACAGGTGAAGAGAAAGC ChrX:34453955..34453974 60 55
upstream ENSMUSE00000449153 ChrX:34453240..34453249 No primer for this exon
upstream ENSMUSE00000702142 ChrX:34443352..34443358 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGAGAAGATAATCGCCTTGC ChrX:34444187..34444207 58.88 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCAGTCAAATGGGTTGTGTG ChrX:34444204..34444224 60.01 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000050379