Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI16784
Trapped Gene
Tbc1d1 (ENSMUSG00000029174)
Vector Insertion
Chr 5: 64621770 - 64647953
Public Clones (ggtc) IST11562C8 (tigm)
Private Clones OST454075 (lexicon) OST433960 (lexicon) OST433563 (lexicon) OST177063 (lexicon)
OST137082 (lexicon) OST126024 (lexicon) OST30647 (lexicon)
Severity of mutation (?) Insertion after 12% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000716231 (Chr5:64621538..64621769 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CGATGTCACCATTGTTCAGC Chr5:64621738..64621757 60.12 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000716231 (Chr5:64621538..64621769 +)
Downstram Exon
ENSMUSE00000257576 (Chr5:64647954..64648394 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CGATGTCACCATTGTTCAGC Chr5:64621738..64621757 60.12 50 CACCGATGAGGTGGTTCTCT Chr5:64648341..64648360 60.11 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000720959 Chr5:64551060..64551094 No primer for this exon
upstream ENSMUSE00000521252 Chr5:64551450..64551744 GTCTCTTCAACCCGCAAGAG Chr5:64551561..64551580 59.99 55
upstream ENSMUSE00000717142 Chr5:64551499..64551744 GTCTCTTCAACCCGCAAGAG Chr5:64551561..64551580 59.99 55
upstream ENSMUSE00000370765 Chr5:64564627..64565135 GCCGAGGTACGAAGACTCAG Chr5:64564851..64564870 60.01 60
upstream ENSMUSE00000718835 Chr5:64564627..64565135 GCCGAGGTACGAAGACTCAG Chr5:64564851..64564870 60.01 60
upstream ENSMUSE00000716231 Chr5:64621538..64621769 CGATGTCACCATTGTTCAGC Chr5:64621738..64621757 60.12 50

*** Putative Vector Insertion (Chr 5: 64621770 - 64647953) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000257576 Chr5:64647954..64648394 CACCGATGAGGTGGTTCTCT Chr5:64648341..64648360 60.11 55
downstream ENSMUSE00000257571 Chr5:64651592..64651681 TGGTGTCAGGACTGATGAGG Chr5:64651634..64651653 59.66 55
downstream ENSMUSE00000257564 Chr5:64654708..64654818 GTGGTCCACATGTCTGATGC Chr5:64654731..64654750 59.97 55
downstream ENSMUSE00000186599 Chr5:64655565..64655697 CCTCTATCCTTTCGCAGAGC Chr5:64655700..64655719 59.17 55
downstream ENSMUSE00000186568 Chr5:64662329..64662420 CTGCTCCTGATTGGTCAGTG Chr5:64662399..64662418 59.42 55
downstream ENSMUSE00000186581 Chr5:64666634..64666744 GCTGCTCGTTTCTTGGTCTC Chr5:64666661..64666680 60.14 55
downstream ENSMUSE00000186566 Chr5:64669155..64669283 TCTGCTGCCACCTGTAGTGT Chr5:64669177..64669196 59.49 55
downstream ENSMUSE00000186577 Chr5:64670570..64670656 GCAGGCCTCTGGCTTTATTA Chr5:64670594..64670613 59.46 50
downstream ENSMUSE00000186578 Chr5:64673004..64673284 AATGTGGCCCTCTGAGTCAC Chr5:64673108..64673127 60.12 55
downstream ENSMUSE00000420812 Chr5:64675206..64675364 TGCTCTCCACTGGAATTGTG Chr5:64675343..64675362 59.83 50
downstream ENSMUSE00000420801 Chr5:64675929..64676048 GGGCATTACGGTAGGAGACA Chr5:64675951..64675970 59.96 55
downstream ENSMUSE00000186592 Chr5:64677184..64677323 TGGCCACTCGAAGGAATATC Chr5:64677287..64677306 60.04 50
downstream ENSMUSE00000333244 Chr5:64702298..64702483 GCGTGACGTCTTCCTCTTTT Chr5:64702404..64702423 59.48 50
downstream ENSMUSE00000421024 Chr5:64707593..64707754 AGCTTGAGGCGTTTGTTCAG Chr5:64707632..64707651 60.57 50
downstream ENSMUSE00000186563 Chr5:64715690..64715848 CTTTGTAGGGCACGTCCTTT Chr5:64715800..64715819 59.24 50
downstream ENSMUSE00000257611 Chr5:64724586..64724830 CCTGGTCCAGAAGCGAGTAG Chr5:64724687..64724706 60.01 60
downstream ENSMUSE00000186570 Chr5:64726517..64726676 AGGTCTCGGTGGTAATCGTG Chr5:64726569..64726588 59.99 55
downstream ENSMUSE00000186562 Chr5:64730801..64730970 CAGGTTGGGGAGTGTGTTCT Chr5:64730940..64730959 60 55
downstream ENSMUSE00000186575 Chr5:64736491..64736664 GAGCACGTGGTACTCGACCT Chr5:64736553..64736572 60.33 60
downstream ENSMUSE00000370716 Chr5:64740969..64742725 ATCTTAGGAGCCCCTGGAAA Chr5:64742038..64742057 60.03 50
downstream ENSMUSE00000718703 Chr5:64740969..64742717 ATCTTAGGAGCCCCTGGAAA Chr5:64742038..64742057 60.03 50
downstream ENSMUSE00000721292 Chr5:64740969..64742721 ATCTTAGGAGCCCCTGGAAA Chr5:64742038..64742057 60.03 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGCGTTGGGGATAGAAAGAT Chr5:64642775..64642795 60.29 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGCGTTGGGGATAGAAAGAT Chr5:64642775..64642795 60.29 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029174