Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI38316
Trapped Gene
4932417H02Rik (ENSMUSG00000025583)
Vector Insertion
Chr 11: 119756320 - 119757216
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 92% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000585259 (Chr11:119756233..119756319 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGGTGGTAAAGGCCTACCTG Chr11:119756265..119756284 60.73 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000585259 (Chr11:119756233..119756319 +)
Downstram Exon
ENSMUSE00000585258 (Chr11:119757217..119757333 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGGTGGTAAAGGCCTACCTG Chr11:119756265..119756284 60.73 60 AAGAAGCGCACATCTCCATT Chr11:119757243..119757262 59.84 45

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
upstream ENSMUSE00000585287 Chr11:119518978..119519080 No primer for this exon
upstream ENSMUSE00000585286 Chr11:119532592..119532674 AACCATCGGTGCAAACCTAC Chr11:119532626..119532645 59.86 50
upstream ENSMUSE00000585285 Chr11:119586324..119586482 AGAGCCTCGACCCTACTGTG Chr11:119586337..119586356 59.47 60
upstream ENSMUSE00000585284 Chr11:119605181..119605327 GCCTCATCGTCAAGTCCTTC Chr11:119605272..119605291 59.81 55
upstream ENSMUSE00000585283 Chr11:119617553..119617728 CTGCGATTAACCCAAACCAT Chr11:119617557..119617576 59.82 45
upstream ENSMUSE00000585282 Chr11:119641857..119641916 CATGCAGAAGTGCGTGAGTC Chr11:119641863..119641882 60.63 55
upstream ENSMUSE00000585281 Chr11:119660083..119660183 AGATACCATCGCCTGGAATG Chr11:119660152..119660171 59.92 50
upstream ENSMUSE00000585280 Chr11:119660636..119660780 AACTGCACCCCAGTAAGCAG Chr11:119660725..119660744 60.31 55
upstream ENSMUSE00000490425 Chr11:119673259..119673334 GGACCTTGCTGTGGACATTT Chr11:119673268..119673287 59.97 50
upstream ENSMUSE00000585279 Chr11:119678392..119678493 CTGACAGCATTCCAGGTGTG Chr11:119678416..119678435 60.31 55
upstream ENSMUSE00000585278 Chr11:119682975..119683058 GGCTGAGAGCATTGGACTTG Chr11:119682997..119683016 60.94 55
upstream ENSMUSE00000585277 Chr11:119684225..119684335 GTGGGCATCTTCCCCTATGT Chr11:119684234..119684253 61.11 55
upstream ENSMUSE00000585276 Chr11:119704996..119705070 TGAAGGACAACGGTCACAAG Chr11:119705015..119705034 59.72 50
upstream ENSMUSE00000585275 Chr11:119707672..119707737 No primer for this exon
upstream ENSMUSE00000585274 Chr11:119708067..119708258 AGTGCCCACGAAAAGCTCTA Chr11:119708211..119708230 60.01 50
upstream ENSMUSE00000585273 Chr11:119712641..119712781 TGGGAAATTCTGCTGAGAGG Chr11:119712678..119712697 60.33 50
upstream ENSMUSE00000585272 Chr11:119717581..119717698 CCTGCAGTTCATGGAGGAAG Chr11:119717643..119717662 60.79 55
upstream ENSMUSE00000585271 Chr11:119718627..119718767 CCCAGACTCCGTTCAGTGAG Chr11:119718668..119718687 60.85 60
upstream ENSMUSE00000585270 Chr11:119719150..119719308 CCTACTCAGCGCTCAACTCC Chr11:119719282..119719301 60.16 60
upstream ENSMUSE00000585269 Chr11:119726866..119726984 TCTGGCTGCTGATCCCTATC Chr11:119726915..119726934 60.33 55
upstream ENSMUSE00000585268 Chr11:119732809..119732912 CCAACGAATCCTTGACACAT Chr11:119732829..119732848 58.42 45
upstream ENSMUSE00000585267 Chr11:119733530..119733713 CCCTCGAACACGAAAGATGT Chr11:119733674..119733693 60.11 50
upstream ENSMUSE00000585266 Chr11:119735468..119735578 CCGGACACAAGAGCTTCATT Chr11:119735493..119735512 60.26 50
upstream ENSMUSE00000585265 Chr11:119746238..119746343 CCGAGGAGCATGACCTAGAG Chr11:119746242..119746261 59.97 60
upstream ENSMUSE00000585264 Chr11:119748351..119748465 CACCAGACTGGACGATCAGA Chr11:119748355..119748374 59.82 55
upstream ENSMUSE00000585263 Chr11:119749856..119749980 CAGGACTGTTCCTTGCTGCT Chr11:119749950..119749969 60.59 55
upstream ENSMUSE00000585262 Chr11:119752428..119752532 ACATGCTTCCAACAACACGA Chr11:119752512..119752531 60.16 45
upstream ENSMUSE00000585261 Chr11:119753866..119753972 GATACTGACCGGGAGACGAA Chr11:119753946..119753965 60.07 55
upstream ENSMUSE00000585260 Chr11:119755570..119755697 ATGGCTCGATCCGTGTCTAC Chr11:119755652..119755671 60.1 55
upstream ENSMUSE00000585259 Chr11:119756233..119756319 GGGTGGTAAAGGCCTACCTG Chr11:119756265..119756284 60.73 60

*** Putative Vector Insertion (Chr 11: 119756320 - 119757216) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
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 GCATGAGACATTTGCTGTGAA Chr11:119756337..119756358 59.86 42.86 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCATGAGACATTTGCTGTGAA Chr11:119756337..119756358 59.86 42.86 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025583