Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI22086
Trapped Gene
Rnf220 (ENSMUSG00000028677)
Vector Insertion
Chr 4: 116944076 - 116944981
Public Clones not available
Private Clones OST309143 (lexicon) OST107850 (lexicon)
Severity of mutation (?) Insertion after 96% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000631417 (Chr4:116944077..116944980 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCCTATGGTGTGATGCTGTG Chr4:116944152..116944171 59.98 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000631417 (Chr4:116944077..116944980 -)
Downstram Exon
ENSMUSE00000600439 (Chr4:116944069..116944980 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCCTATGGTGTGATGCTGTG Chr4:116944152..116944171 59.98 55 TGGTAGAGGGCAAAGTGTCC Chr4:116944506..116944525 60.11 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000631419 Chr4:117169288..117169657 GAAAAGTGCGATCGTTCTCC Chr4:117169303..117169322 59.82 50
upstream ENSMUSE00000416436 Chr4:117162194..117162935 CACCAATGGCTCCTACACCT Chr4:117162614..117162633 59.99 55
upstream ENSMUSE00000705661 Chr4:117162194..117162818 CACCAATGGCTCCTACACCT Chr4:117162614..117162633 59.99 55
upstream ENSMUSE00000600443 Chr4:117047919..117048062 TCCAACAGGGATCCTGACAT Chr4:117047934..117047953 60.33 50
upstream ENSMUSE00000353420 Chr4:116980151..116980283 CAGCGAGTTGCAGGAACATA Chr4:116980191..116980210 60.01 50
upstream ENSMUSE00000600442 Chr4:116980151..116980283 CAGCGAGTTGCAGGAACATA Chr4:116980191..116980210 60.01 50
upstream ENSMUSE00000396426 Chr4:116972150..116972195 No primer for this exon
upstream ENSMUSE00000353812 Chr4:116968737..116968838 AGGACCTGCACCACTCAGAC Chr4:116968746..116968765 60.31 60
upstream ENSMUSE00000631418 Chr4:116961808..116962051 No primer for this exon
upstream ENSMUSE00000407394 Chr4:116961631..116961673 No primer for this exon
upstream ENSMUSE00000669899 Chr4:116961128..116961377 GTTATCAGTCGGCCCACATT Chr4:116961136..116961155 59.82 50
upstream ENSMUSE00000416114 Chr4:116958534..116958577 GAAACGGAGGAAGCAAGATG Chr4:116958542..116958561 59.81 50
upstream ENSMUSE00000669898 Chr4:116958534..116958577 GAAACGGAGGAAGCAAGATG Chr4:116958542..116958561 59.81 50
upstream ENSMUSE00000600441 Chr4:116958456..116958577 TGAGTAGGCATGTGGAGCAC Chr4:116958468..116958487 59.86 55
upstream ENSMUSE00000181244 Chr4:116957984..116958116 AGCAACCGCTTTGAGGAATA Chr4:116958043..116958062 59.85 45
upstream ENSMUSE00000181245 Chr4:116950612..116950708 AGTGGCAAAGAGAACCCAGA Chr4:116950669..116950688 59.84 50
upstream ENSMUSE00000662304 Chr4:116950348..116950434 ACAGGAGAAGAGCCTGGTGA Chr4:116950387..116950406 59.99 55
upstream ENSMUSE00000181246 Chr4:116950187..116950242 TCTCTAAATGGGCCAGTGATG Chr4:116950187..116950207 60.08 47.62
upstream ENSMUSE00000181242 Chr4:116949976..116950054 GCAAGAACAGCGACATTGAG Chr4:116949978..116949997 59.6 50
upstream ENSMUSE00000181248 Chr4:116945852..116945960 GAGCTTGAACGGCAGCTATC Chr4:116945886..116945905 60.12 55
upstream ENSMUSE00000181243 Chr4:116945658..116945732 CTGACGTCGATCCAGTGTTG Chr4:116945695..116945714 60.31 55
upstream ENSMUSE00000600440 Chr4:116944532..116944980 CCTCAGTGCAACACCATCAC Chr4:116944943..116944962 60.16 55
upstream ENSMUSE00000631417 Chr4:116944077..116944980 CCCTATGGTGTGATGCTGTG Chr4:116944152..116944171 59.98 55

*** Putative Vector Insertion (Chr 4: 116944076 - 116944981) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000600439 Chr4:116944069..116944980 TGGTAGAGGGCAAAGTGTCC Chr4:116944506..116944525 60.11 55
downstream ENSMUSE00000705662 Chr4:116944068..116944980 CGGCTCCAGAGTCCTCTATG Chr4:116944734..116944753 59.97 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCTCAGTGCAACACCATCAC Chr4:116944941..116944961 60.16 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCTCAGTGCAACACCATCAC Chr4:116944941..116944961 60.16 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000028677