Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2259
Trapped Gene
Ptges3 (ENSMUSG00000071072)
Vector Insertion
Chr 10: 127496343 - 127505727
Public Clones (sanger) (sanger) (sanger) AK0284 (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) RST271 (baygenomics) P063D01 (ggtc)
P013D04 (ggtc) W069F07 (ggtc) CMHD-GT_347F10-3 (cmhd) CMHD-GT_402D1-3 (cmhd)
PST1255-1 (escells) PSTVU02.23L (vanderbilt) PSTVU01.E3P (vanderbilt) IST14428C9 (tigm)
IST14425E11 (tigm)
Private Clones OST448259 (lexicon) OST432765 (lexicon) OST427022 (lexicon) OST426287 (lexicon)
OST423216 (lexicon) OST403353 (lexicon) OST370165 (lexicon) OST350669 (lexicon)
OST288306 (lexicon) OST274315 (lexicon) OST261362 (lexicon) OST261295 (lexicon)
OST257637 (lexicon) OST250697 (lexicon) OST249617 (lexicon) OST249481 (lexicon)
OST235439 (lexicon) OST208240 (lexicon) OST207838 (lexicon) OST178219 (lexicon)
OST171848 (lexicon) OST153865 (lexicon) OST138627 (lexicon) OST131518 (lexicon)
OST130998 (lexicon) OST80383 (lexicon) OST55284 (lexicon) OST53103 (lexicon)
OST53056 (lexicon) OST41276 (lexicon) OST37081 (lexicon) OST30965 (lexicon)
Severity of mutation (?) Insertion after 1% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000665444 (Chr10:127496067..127496342 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CGCCCCTTTTCCTACACTTT Chr10:127496113..127496132 60.47 50 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000665444 (Chr10:127496067..127496342 +)
Downstram Exon
ENSMUSE00000573188 (Chr10:127505728..127505841 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CGCCCCTTTTCCTACACTTT Chr10:127496113..127496132 60.47 50 TCGATCGTACCACTTTGCAG Chr10:127505761..127505780 59.86 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000665445 Chr10:127496038..127496342 CGCCCCTTTTCCTACACTTT Chr10:127496113..127496132 60.47 50
upstream ENSMUSE00000665444 Chr10:127496067..127496342 CGCCCCTTTTCCTACACTTT Chr10:127496113..127496132 60.47 50

*** Putative Vector Insertion (Chr 10: 127496343 - 127505727) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000573188 Chr10:127505728..127505841 TCGATCGTACCACTTTGCAG Chr10:127505761..127505780 59.86 50
downstream ENSMUSE00000461177 Chr10:127506272..127506341 No primer for this exon
downstream ENSMUSE00000493202 Chr10:127507190..127507288 TCTCCTTTTCGCAAACAACAT Chr10:127507247..127507267 59.74 38.1
downstream ENSMUSE00000517322 Chr10:127509124..127509213 CAGAGAAACGGTCAAAATTCG Chr10:127509213..127509233 59.73 42.86
downstream ENSMUSE00000506418 Chr10:127511278..127511340 ATCCTCATCACCACCCATGT Chr10:127511310..127511329 60.06 50
downstream ENSMUSE00000505855 Chr10:127512394..127512418 No primer for this exon
downstream ENSMUSE00000639522 Chr10:127513123..127514310 AAAATCCAGGCGATGACAAC Chr10:127513170..127513189 59.94 45
downstream ENSMUSE00000665443 Chr10:127513123..127514034 AAAATCCAGGCGATGACAAC Chr10:127513170..127513189 59.94 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TCACCATGTGAGTGCGACAT Chr10:127496337..127496357 61.21 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TCACCATGTGAGTGCGACAT Chr10:127496337..127496357 61.21 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000071072