Tools for the biologist enabling optimized use of gene trap clones

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

UniTrap UNI20766
Trapped Gene
8430427H17Rik (ENSMUSG00000061411)
Vector Insertion
Chr 2: 153309579 - 153355177
Public Clones (sanger) IST13568D11 (tigm) IST11076C6 (tigm) IST11076C6 (tigm) IST10464G1 (tigm)
IST14948G12 (tigm)
Private Clones OST352736 (lexicon) OST314736 (lexicon) OST288107 (lexicon) OST99852 (lexicon)
OST55287 (lexicon)
Severity of mutation (?) Insertion after 16% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000555729 (Chr2:153355178..153355709 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CGACTCGGCTAAAACCAAGA Chr2:153355372..153355391 60.38 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000555729 (Chr2:153355178..153355709 -)
Downstram Exon
ENSMUSE00000504458 (Chr2:153309423..153309578 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CGACTCGGCTAAAACCAAGA Chr2:153355372..153355391 60.38 50 CTCCACGTGCATCGAGTAGA Chr2:153309461..153309480 60.01 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000555729 Chr2:153355178..153355709 CGACTCGGCTAAAACCAAGA Chr2:153355372..153355391 60.38 50

*** Putative Vector Insertion (Chr 2: 153309579 - 153355177) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000504458 Chr2:153309423..153309578 CTCCACGTGCATCGAGTAGA Chr2:153309461..153309480 60.01 55
downstream ENSMUSE00000276516 Chr2:153303607..153303718 GAACCGAGTCACAGCCTCTC Chr2:153303649..153303668 59.99 60
downstream ENSMUSE00000276509 Chr2:153296424..153296533 TGAGGGGCATGTTGTAATCA Chr2:153296455..153296474 59.92 45
downstream ENSMUSE00000681596 Chr2:153270093..153270215 GGCGATCTAGCTCTGGGAGT Chr2:153270096..153270115 60.89 60
downstream ENSMUSE00000276502 Chr2:153261942..153262083 TCCATGCGGAGTCATTCATA Chr2:153262010..153262029 60.03 45
downstream ENSMUSE00000460716 Chr2:153246268..153246545 GTGGATGGGTTCAGGGTAGA Chr2:153246466..153246485 59.78 55
downstream ENSMUSE00000461586 Chr2:153243696..153243881 ATCGTCATCGTCATCTGCTG Chr2:153243752..153243771 59.82 50
downstream ENSMUSE00000471602 Chr2:153243424..153243615 GGTTCTCATCCACGAAGAGC Chr2:153243563..153243582 59.81 55
downstream ENSMUSE00000463499 Chr2:153243099..153243221 AGGTCAGATGCGGAGGAGTA Chr2:153243172..153243191 59.83 55
downstream ENSMUSE00000384147 Chr2:153242380..153242581 AGTCCCGAGAGTGCTGCTTA Chr2:153242520..153242539 60.16 55
downstream ENSMUSE00000466561 Chr2:153233202..153237565 CAGACAGAATGCGGTAAGCA Chr2:153235321..153235340 60.01 50
downstream ENSMUSE00000681598 Chr2:153233198..153237565 CAGACAGAATGCGGTAAGCA Chr2:153235321..153235340 60.01 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATCAGAGGGGCTTGCCTAAT Chr2:153325125..153325145 60.06 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCCTAACGTGACTGGGAAAA Chr2:153325112..153325132 60.11 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 GGGAGGTGTTCTGCTTTGTG Chr2:153325701..153325721 60.69 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GGGAGGTGTTCTGCTTTGTG Chr2:153325701..153325721 60.69 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000061411