Tools for the biologist enabling optimized use of gene trap clones

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

UniTrap UNI38389
Trapped Gene
Rfwd2 (ENSMUSG00000040782)
Vector Insertion
Chr 1: 161198317 - 161208219
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 44% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000228926 (Chr1:161198240..161198316 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TTTGAAGCTCCTTCTCCATCA Chr1:161198291..161198311 59.94 42.86 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000228926 (Chr1:161198240..161198316 +)
Downstram Exon
ENSMUSE00000228920 (Chr1:161208220..161208277 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TTTGAAGCTCCTTCTCCATCA Chr1:161198291..161198311 59.94 42.86 CCTGGAGGTTGGCTGTATTC Chr1:161208261..161208280 59.55 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000536883 Chr1:161162457..161162981 TTTGTAACGGGCTCCTCAAC Chr1:161162930..161162949 60.11 50
upstream ENSMUSE00000594714 Chr1:161169693..161169752 No primer for this exon
upstream ENSMUSE00000407886 Chr1:161174720..161174817 No primer for this exon
upstream ENSMUSE00000518026 Chr1:161179333..161179409 No primer for this exon
upstream ENSMUSE00000492186 Chr1:161180154..161180273 ATTTGGCCAATGTCAACCTC Chr1:161180212..161180231 59.8 45
upstream ENSMUSE00000228940 Chr1:161182679..161182747 CCTCAAGGTTGCAAGGAGAA Chr1:161182717..161182736 60.37 50
upstream ENSMUSE00000228933 Chr1:161196888..161196947 ATTGGAGCAGATCCAGAAGG Chr1:161196890..161196909 59.24 50
upstream ENSMUSE00000228926 Chr1:161198240..161198316 TTTGAAGCTCCTTCTCCATCA Chr1:161198291..161198311 59.94 42.86

*** Putative Vector Insertion (Chr 1: 161198317 - 161208219) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000228920 Chr1:161208220..161208277 CCTGGAGGTTGGCTGTATTC Chr1:161208261..161208280 59.55 55
downstream ENSMUSE00000228909 Chr1:161214679..161214793 TCGCTTTCGTCTTGATGCTA Chr1:161214732..161214751 59.71 45
downstream ENSMUSE00000228905 Chr1:161219036..161219171 AATGTGGCCAACGGTCTTAC Chr1:161219129..161219148 59.86 50
downstream ENSMUSE00000228899 Chr1:161236704..161236847 AGTCACAATCCCGGTCAAAC Chr1:161236732..161236751 59.83 50
downstream ENSMUSE00000228893 Chr1:161238541..161238649 TGACCTCTGTCCTGTGAATCC Chr1:161238639..161238659 60.1 52.38
downstream ENSMUSE00000228887 Chr1:161239014..161239095 CATCAGAACCTGAAGCCAGAA Chr1:161239088..161239108 60.38 47.62
downstream ENSMUSE00000228881 Chr1:161249855..161249971 AGGGGCTGAACTTCACACAG Chr1:161249941..161249960 60.3 55
downstream ENSMUSE00000228874 Chr1:161255048..161255165 GACACTGCTTTTCGGTGTCC Chr1:161255129..161255148 60.7 55
downstream ENSMUSE00000228870 Chr1:161257208..161257332 TGGAAGCAAGGCCTACAAAG Chr1:161257314..161257333 60.38 50
downstream ENSMUSE00000228866 Chr1:161258733..161258893 CCAACACACAGCACTGACAAA Chr1:161258877..161258897 60.81 47.62
downstream ENSMUSE00000658920 Chr1:161272938..161272982 GCAATCAGCACATTGGACTC Chr1:161272960..161272979 59.25 50
downstream ENSMUSE00000688685 Chr1:161274952..161277711 GGTGGCGAATTCTCTGGATA Chr1:161275148..161275167 60.04 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGTTTCCATCTCCGTTTCTTG Chr1:161201293..161201314 60.1 42.86 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGTTCACGTGACTGGGAAA Chr1:161204361..161204381 59.57 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040782