Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI7290
Trapped Gene
Herc2 (ENSMUSG00000030451)
Vector Insertion
Chr 7: 63446724 - 63447163
Public Clones RRT586 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 72% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000593438 (Chr7:63446537..63446723 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TCCAAATCTGTGGCAAGAAA Chr7:63446696..63446715 59.25 40 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000593438 (Chr7:63446537..63446723 +)
Downstram Exon
ENSMUSE00000593437 (Chr7:63447164..63447304 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TCCAAATCTGTGGCAAGAAA Chr7:63446696..63446715 59.25 40 CATGGTTTCTGCAATGATGC Chr7:63447292..63447311 60.08 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000519333 Chr7:63305623..63305672 No primer for this exon
upstream ENSMUSE00000673647 Chr7:63306226..63306318 GTCTCGCCTTGACTCCAAAT Chr7:63306279..63306298 59.29 50
upstream ENSMUSE00000593502 Chr7:63323354..63323468 GGTCTGTGGAACGAAATGGT Chr7:63323381..63323400 59.83 50
upstream ENSMUSE00000593501 Chr7:63327663..63327800 GTGTCGATGCTCAGAGTGGA Chr7:63327669..63327688 59.99 55
upstream ENSMUSE00000593500 Chr7:63340359..63340578 TCCTCGAGCGCTACTTCATT Chr7:63340473..63340492 60.12 50
upstream ENSMUSE00000593499 Chr7:63342710..63342810 GGCAGAGGGGTAGAAGGTCT Chr7:63342723..63342742 59.7 60
upstream ENSMUSE00000593498 Chr7:63343627..63343783 CGAGGTTCCTCAGGTCTGTC Chr7:63343756..63343775 59.83 60
upstream ENSMUSE00000593497 Chr7:63346285..63346395 GTCCAGAGAGGCACGCTTAG Chr7:63346376..63346395 60.16 60
upstream ENSMUSE00000593496 Chr7:63347909..63348080 ACACACAGAGAGCGACATGC Chr7:63348059..63348078 60.06 55
upstream ENSMUSE00000593495 Chr7:63349635..63349808 AGCCCCAATGAGAGTTTCCT Chr7:63349653..63349672 60.07 50
upstream ENSMUSE00000593494 Chr7:63352747..63352935 GCAGAAAAGCGGTTCTTGAT Chr7:63352864..63352883 59.46 45
upstream ENSMUSE00000593493 Chr7:63353705..63353856 GTGAAAATTGCTGCCCATTC Chr7:63353744..63353763 60.46 45
upstream ENSMUSE00000593492 Chr7:63355449..63355606 GTGATCTCGGCTTTCTCAGG Chr7:63355468..63355487 59.95 55
upstream ENSMUSE00000593491 Chr7:63355698..63355811 GGTCATTGATGTTGCCTGTG Chr7:63355753..63355772 59.97 50
upstream ENSMUSE00000593490 Chr7:63359098..63359349 ATGGCGACTATGGGAAGTTG Chr7:63359119..63359138 59.96 50
upstream ENSMUSE00000593489 Chr7:63361709..63361902 ACACTTTGCGTGTGACCAAG Chr7:63361814..63361833 59.79 50
upstream ENSMUSE00000593488 Chr7:63364056..63364256 TTTGCGTGGTCATCTTGTTC Chr7:63364059..63364078 59.7 45
upstream ENSMUSE00000593487 Chr7:63368415..63368643 ACCCGGAATTCCTTGGTTTA Chr7:63368443..63368462 60.53 45
upstream ENSMUSE00000593486 Chr7:63368768..63368892 GCTGATGGAGGATTGGAGTC Chr7:63368839..63368858 59.62 55
upstream ENSMUSE00000593485 Chr7:63370072..63370250 CCAGTGCCTCCACATTTCAT Chr7:63370127..63370146 60.92 50
upstream ENSMUSE00000593484 Chr7:63376915..63377099 ATCGGCTTCACTGGATCTGT Chr7:63377005..63377024 59.69 50
upstream ENSMUSE00000593483 Chr7:63377683..63377838 CCTGAGCTAATGGGTGTTGG Chr7:63377685..63377704 60.51 55
upstream ENSMUSE00000593482 Chr7:63379567..63379752 CTTCCGGAGCTAGTGGTGTC Chr7:63379575..63379594 59.87 60
upstream ENSMUSE00000593481 Chr7:63386539..63386709 GATGGTGGCTTCTGGACTGT Chr7:63386622..63386641 60.12 55
upstream ENSMUSE00000593480 Chr7:63387169..63387272 AAGATCCAGTGGTCGCTCTG Chr7:63387184..63387203 60.41 55
upstream ENSMUSE00000593479 Chr7:63387792..63387942 TGGGCCTACTTCTTGGATTG Chr7:63387865..63387884 60.07 50
upstream ENSMUSE00000593478 Chr7:63389966..63390180 GGCTGCAGTCATCGATTTTT Chr7:63389969..63389988 60.22 45
upstream ENSMUSE00000593477 Chr7:63390401..63390533 AGGTTGGCCGTCTTCTGTTA Chr7:63390486..63390505 59.73 50
upstream ENSMUSE00000593476 Chr7:63390640..63390767 CCAAGCAAAATGCTCACTCAT Chr7:63390743..63390763 60.26 42.86
upstream ENSMUSE00000593475 Chr7:63390856..63391051 AATTGAGGCCTGCTGTTTGT Chr7:63390932..63390951 59.74 45
upstream ENSMUSE00000593474 Chr7:63391957..63392090 GAAGCTTGTGTTTTGCCTCA Chr7:63392022..63392041 59.05 45
upstream ENSMUSE00000593473 Chr7:63392591..63392764 CGGAAGTGCCTCCTAAAACA Chr7:63392744..63392763 60.24 50
upstream ENSMUSE00000593472 Chr7:63392839..63392975 AGCAGAGGTTCGTCTGGAAG Chr7:63392847..63392866 59.6 55
upstream ENSMUSE00000593471 Chr7:63393090..63393241 CCATTTAATCGGATGCTGCT Chr7:63393133..63393152 60.06 45
upstream ENSMUSE00000593470 Chr7:63394149..63394340 TCCCACAAGCTCGATTTCTT Chr7:63394215..63394234 59.81 45
upstream ENSMUSE00000593469 Chr7:63401134..63401321 GAAGATTGGAACCAGGGTCA Chr7:63401270..63401289 59.9 50
upstream ENSMUSE00000593468 Chr7:63401907..63402099 GTCTAGGCCGGGTAATTGGT Chr7:63401923..63401942 60.21 55
upstream ENSMUSE00000593467 Chr7:63404009..63404191 ATGCTGACATCATGCAGAGC Chr7:63404105..63404124 59.98 50
upstream ENSMUSE00000593466 Chr7:63407813..63407994 GGTGTACACTGGGCTTCGTC Chr7:63407855..63407874 60.58 60
upstream ENSMUSE00000593465 Chr7:63408414..63408561 TCCATCATGGGACAAGACAG Chr7:63408446..63408465 59.47 50
upstream ENSMUSE00000593464 Chr7:63408636..63408832 AAAGCTATGCCGGAAAGACA Chr7:63408804..63408823 59.85 45
upstream ENSMUSE00000593463 Chr7:63409147..63409377 AATCACCGTGCAGTTCTGTG Chr7:63409314..63409333 59.75 50
upstream ENSMUSE00000593462 Chr7:63410385..63410523 TTTCACGGAGCCTATGCTTT Chr7:63410420..63410439 59.85 45
upstream ENSMUSE00000593461 Chr7:63411757..63411900 TCAGGGGACTGGAACTCTTC Chr7:63411875..63411894 59.23 55
upstream ENSMUSE00000593460 Chr7:63412230..63412372 CCATCTCCTGTGAAGGCAAT Chr7:63412331..63412350 60.07 50
upstream ENSMUSE00000593459 Chr7:63412661..63412928 CTCTGGGAATGCATCTGGTT Chr7:63412903..63412922 60.07 50
upstream ENSMUSE00000593458 Chr7:63413018..63413154 TGGCTGCTAGACCACTCTGA Chr7:63413038..63413057 59.73 55
upstream ENSMUSE00000593457 Chr7:63414744..63414842 AGAAGCGTGCTGATTTCCTG Chr7:63414781..63414800 60.54 50
upstream ENSMUSE00000593456 Chr7:63419112..63419280 GAAGGTGATGTGGGCAAAGT Chr7:63419157..63419176 59.97 50
upstream ENSMUSE00000593455 Chr7:63419379..63419504 GGGATCCGTCACTCATCAAA Chr7:63419467..63419486 60.87 50
upstream ENSMUSE00000593454 Chr7:63420285..63420393 GTGCCAATGGGAAAGACATC Chr7:63420291..63420310 60.33 50
upstream ENSMUSE00000593453 Chr7:63420508..63420647 GACGGCTGTCAGACTTTTCC Chr7:63420512..63420531 59.85 55
upstream ENSMUSE00000593452 Chr7:63424196..63424386 AAACCAGGCTTCTCGTCTCA Chr7:63424320..63424339 59.99 50
upstream ENSMUSE00000593451 Chr7:63425756..63425861 GTGGATCCAGCGGACAGTAG Chr7:63425813..63425832 60.68 60
upstream ENSMUSE00000593450 Chr7:63425945..63426036 GACACCACTGTACCCCTGCT Chr7:63426001..63426020 60.03 60
upstream ENSMUSE00000593449 Chr7:63433195..63433370 ACTGCAAAATCCACGGTCTC Chr7:63433247..63433266 60.12 50
upstream ENSMUSE00000593448 Chr7:63436439..63436550 GACTCCAGGGTTGGAATCAA Chr7:63436454..63436473 59.9 50
upstream ENSMUSE00000593447 Chr7:63437775..63437856 GTCTGCCCTGAATGTGGTTC Chr7:63437804..63437823 60.52 55
upstream ENSMUSE00000593446 Chr7:63437950..63438093 CAGCAGCTACGTGGTCAAGA Chr7:63438056..63438075 60.2 55
upstream ENSMUSE00000593445 Chr7:63439312..63439402 TTTCATGGGGTGAAGGTGAT Chr7:63439354..63439373 60.17 45
upstream ENSMUSE00000593444 Chr7:63439676..63439853 CTGACATCCAGTGGGGAACT Chr7:63439761..63439780 59.96 55
upstream ENSMUSE00000593443 Chr7:63439996..63440077 ACTGGCTCTGACCGATGAAG Chr7:63440058..63440077 60.41 55
upstream ENSMUSE00000593442 Chr7:63440163..63440334 GGTGTGCCAGATTGAGTGTG Chr7:63440266..63440285 60.16 55
upstream ENSMUSE00000593441 Chr7:63441205..63441349 GGGCGACTACTTCAGACTGG Chr7:63441211..63441230 59.87 60
upstream ENSMUSE00000593440 Chr7:63443931..63444156 CCTGTCCTCTTCCAGACTGC Chr7:63444108..63444127 59.99 60
upstream ENSMUSE00000593439 Chr7:63445174..63445345 CCTTCGGATGCTGATTCTTC Chr7:63445179..63445198 59.77 50
upstream ENSMUSE00000593438 Chr7:63446537..63446723 TCCAAATCTGTGGCAAGAAA Chr7:63446696..63446715 59.25 40

*** Putative Vector Insertion (Chr 7: 63446724 - 63447163) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000593437 Chr7:63447164..63447304 CATGGTTTCTGCAATGATGC Chr7:63447292..63447311 60.08 45
downstream ENSMUSE00000593436 Chr7:63449580..63449771 GCTCTGGGCCTGATGTTTTA Chr7:63449619..63449638 60.21 50
downstream ENSMUSE00000593435 Chr7:63452426..63452579 TGGTGGAGGTGTCGTCTGTA Chr7:63452561..63452580 60.15 55
downstream ENSMUSE00000199130 Chr7:63457471..63457578 CCTGTTGACACCATCCATGA Chr7:63457562..63457581 60.38 50
downstream ENSMUSE00000199136 Chr7:63459146..63459277 TCACTCGACCAGTCAGACCA Chr7:63459176..63459195 60.45 55
downstream ENSMUSE00000199157 Chr7:63459756..63459914 ATGAGAGGACACAGCGATCC Chr7:63459797..63459816 60.23 55
downstream ENSMUSE00000199111 Chr7:63460004..63460122 CCCAGCAGCCTGTTTATGTT Chr7:63460097..63460116 60.13 50
downstream ENSMUSE00000199153 Chr7:63460682..63460807 AGCTGTTTGCCACCTCTCAC Chr7:63460788..63460807 60.45 55
downstream ENSMUSE00000199121 Chr7:63461238..63461393 GAAACAGACGAGGCAATGGT Chr7:63461388..63461407 60.12 50
downstream ENSMUSE00000199148 Chr7:63461892..63462007 CATCCACTGCACAAGTTGCT Chr7:63462005..63462024 59.9 50
downstream ENSMUSE00000199114 Chr7:63462098..63462296 CCACCCATAAATGGTTCCAC Chr7:63462155..63462174 59.91 50
downstream ENSMUSE00000199085 Chr7:63463062..63463276 CAGCACCATAGCCAGTAGCA Chr7:63463089..63463108 60.03 55
downstream ENSMUSE00000199147 Chr7:63468191..63468368 TTTGCCCCATGTGTAGAGGT Chr7:63468314..63468333 60.38 50
downstream ENSMUSE00000199084 Chr7:63468812..63468973 GCCAAGCTTGCCATAGTCTC Chr7:63468940..63468959 59.99 55
downstream ENSMUSE00000199089 Chr7:63470723..63470814 TGGTAAGGGCGACAGAAAAC Chr7:63470795..63470814 60.11 50
downstream ENSMUSE00000199103 Chr7:63471217..63471356 AGGTCTTCGAACGTGGTCAT Chr7:63471277..63471296 59.58 50
downstream ENSMUSE00000199151 Chr7:63475075..63475262 GCAGCTACCAATCGTGGTCT Chr7:63475165..63475184 60.28 55
downstream ENSMUSE00000338975 Chr7:63475847..63476044 CGGTTCCGTAGAGCAATGAT Chr7:63475905..63475924 60.1 50
downstream ENSMUSE00000381132 Chr7:63478280..63478363 TCTCGCACCATAGTTGCTTG Chr7:63478326..63478345 60.01 50
downstream ENSMUSE00000282288 Chr7:63481889..63482030 CAGACTCGGTGAGGAAGGAG Chr7:63482016..63482035 59.98 60
downstream ENSMUSE00000282279 Chr7:63482208..63482402 GGGTGGCAGGGTTTAATAGG Chr7:63482369..63482388 60.55 55
downstream ENSMUSE00000282268 Chr7:63483172..63483284 CCAGCTGCTTCCATACAGGT Chr7:63483252..63483271 60.28 55
downstream ENSMUSE00000282257 Chr7:63483799..63483989 GCAGGCTCATAGCCTCAAAT Chr7:63483883..63483902 59.44 50
downstream ENSMUSE00000422902 Chr7:63484654..63484759 AGGTACAACTCGAGCCATCC Chr7:63484717..63484736 59.17 55
downstream ENSMUSE00000282231 Chr7:63485031..63485243 GAACCACTGGACCAAGGATG Chr7:63485126..63485145 60.36 55
downstream ENSMUSE00000342544 Chr7:63486230..63487166 AAGAGTCGGCGTCCTCATTA Chr7:63486464..63486483 59.84 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCAAATCTGTGGCAAGAAAA Chr7:63446698..63446718 58.74 40 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AAAGGTGGCTTTCGTGACTG Chr7:63446763..63446783 60.29 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000030451