Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2866
Trapped Gene
4932417H02Rik (ENSMUSG00000025583)
Vector Insertion
Chr 11: 119465286 - 119518977
Public Clones AF0046 (sanger) RRG399 (baygenomics) RRO611 (baygenomics) D128H11 (ggtc)
D126C09 (ggtc) (ggtc) D126C09 (ggtc) IST15082H3 (tigm) IST15082H3 (tigm)
IST11578E11 (tigm) IST14826F3 (tigm) IST14568F9 (tigm) IST11558B4 (tigm)
Private Clones OST468539 (lexicon) OST375213 (lexicon) OST201315 (lexicon) OST96784 (lexicon)
Severity of mutation (?) Insertion after 4% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000462333 (Chr11:119465012..119465285 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCAAATCTTTAGCGCAGAGC Chr11:119465248..119465267 60.12 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000462333 (Chr11:119465012..119465285 +)
Downstram Exon
ENSMUSE00000585287 (Chr11:119518978..119519080 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCAAATCTTTAGCGCAGAGC Chr11:119465248..119465267 60.12 50 GAGGATCCACACCCACATTC Chr11:119519035..119519054 60.18 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000462333 Chr11:119465012..119465285 CCAAATCTTTAGCGCAGAGC Chr11:119465248..119465267 60.12 50

*** Putative Vector Insertion (Chr 11: 119465286 - 119518977) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000585287 Chr11:119518978..119519080 GAGGATCCACACCCACATTC Chr11:119519035..119519054 60.18 55
downstream ENSMUSE00000585286 Chr11:119532592..119532674 GTAGGTTTGCACCGATGGTT Chr11:119532648..119532667 59.86 50
downstream ENSMUSE00000585285 Chr11:119586324..119586482 GTCGAGGCTCTGCTTGTACC Chr11:119586350..119586369 60.02 60
downstream ENSMUSE00000585284 Chr11:119605181..119605327 CGTCTGCAGGTCGTATATGG Chr11:119605228..119605247 59.17 55
downstream ENSMUSE00000585283 Chr11:119617553..119617728 AGGCAGGATGTGAACAGGTC Chr11:119617701..119617720 60.12 55
downstream ENSMUSE00000585282 Chr11:119641857..119641916 CACCAGACTCACGCACTTCT Chr11:119641890..119641909 59.05 55
downstream ENSMUSE00000585281 Chr11:119660083..119660183 CATTCCAGGCGATGGTATCT Chr11:119660174..119660193 59.92 50
downstream ENSMUSE00000585280 Chr11:119660636..119660780 CTGCTTACTGGGGTGCAGTT Chr11:119660747..119660766 60.31 55
downstream ENSMUSE00000490425 Chr11:119673259..119673334 GAGAGGCAAATGTCCACAGC Chr11:119673297..119673316 60.81 55
downstream ENSMUSE00000585279 Chr11:119678392..119678493 TCCTGTTTTCCACACCCATT Chr11:119678464..119678483 60.21 45
downstream ENSMUSE00000585278 Chr11:119682975..119683058 CAGCAAGTCCAATGCTCTCA Chr11:119683022..119683041 60.14 50
downstream ENSMUSE00000585277 Chr11:119684225..119684335 GATTTTGGCCCAGATGAAGA Chr11:119684323..119684342 60.01 45
downstream ENSMUSE00000585276 Chr11:119704996..119705070 GTCTGCCAAGACGGATAGGA Chr11:119705061..119705080 60.22 55
downstream ENSMUSE00000585275 Chr11:119707672..119707737 TGCCCTGTTGTGTAGCTGTT Chr11:119707739..119707758 59.37 50
downstream ENSMUSE00000585274 Chr11:119708067..119708258 TAGAGCTTTTCGTGGGCACT Chr11:119708233..119708252 60.01 50
downstream ENSMUSE00000585273 Chr11:119712641..119712781 GGCTTCCATCATTGATCAGC Chr11:119712770..119712789 60.58 50
downstream ENSMUSE00000585272 Chr11:119717581..119717698 CTGGAGAAGGCAAAGGGTAG Chr11:119717692..119717711 58.93 55
downstream ENSMUSE00000585271 Chr11:119718627..119718767 GGAGCTCACTGAACGGAGTC Chr11:119718694..119718713 59.99 60
downstream ENSMUSE00000585270 Chr11:119719150..119719308 AGGGAGTTGAGCGCTGAGTA Chr11:119719306..119719325 60.16 55
downstream ENSMUSE00000585269 Chr11:119726866..119726984 GATAGGGATCAGCAGCCAGA Chr11:119726937..119726956 60.33 55
downstream ENSMUSE00000585268 Chr11:119732809..119732912 GCCGACTGTGTGAGAGAGGA Chr11:119732870..119732889 61.6 60
downstream ENSMUSE00000585267 Chr11:119733530..119733713 CAGGGCCTTTGTCAAACATC Chr11:119733711..119733730 60.49 50
downstream ENSMUSE00000585266 Chr11:119735468..119735578 GCAGCATCATCTGCATCATC Chr11:119735496..119735515 60.36 50
downstream ENSMUSE00000585265 Chr11:119746238..119746343 CTCCTTGCGGATCTGACTCT Chr11:119746282..119746301 59.56 55
downstream ENSMUSE00000585264 Chr11:119748351..119748465 TCTGATCGTCCAGTCTGGTG Chr11:119748377..119748396 59.82 55
downstream ENSMUSE00000585263 Chr11:119749856..119749980 AGCAAGGAACAGTCCTGACC Chr11:119749969..119749988 59.31 55
downstream ENSMUSE00000585262 Chr11:119752428..119752532 TCGTGTTGTTGGAAGCATGT Chr11:119752534..119752553 60.16 45
downstream ENSMUSE00000585261 Chr11:119753866..119753972 TTCGTCTCCCGGTCAGTATC Chr11:119753968..119753987 60.07 55
downstream ENSMUSE00000585260 Chr11:119755570..119755697 GGTGCGAATCACAAGACAGA Chr11:119755627..119755646 59.84 50
downstream ENSMUSE00000585259 Chr11:119756233..119756319 GCTGTGTGCTCTCGGTAAGTC Chr11:119756264..119756284 60.07 57.14
downstream ENSMUSE00000585258 Chr11:119757217..119757333 AAGAAGCGCACATCTCCATT Chr11:119757243..119757262 59.84 45
downstream ENSMUSE00000585257 Chr11:119757734..119757863 CAGCTCTCCATTTCCGTTGT Chr11:119757785..119757804 60.26 50
downstream ENSMUSE00000401569 Chr11:119758728..119760904 CTGCAGTGCCTAAGGTCCTC Chr11:119759997..119760016 60.01 60

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAGTTAATCGCCTTGCAGCAC Chr11:119483333..119483354 60.41 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTGTGTGCCCTTTTGCATTT Chr11:119483248..119483268 60.93 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025583