Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI18800
Trapped Gene
Chd4 (ENSMUSG00000063870)
Vector Insertion
Chr 6: 125046279 - 125047104
Public Clones not available
Private Clones OST413999 (lexicon) OST357528 (lexicon) OST345819 (lexicon) OST341140 (lexicon)
OST306677 (lexicon) OST211121 (lexicon) OST179262 (lexicon) OST173413 (lexicon)
OST52644 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000503887 (Chr6:125046181..125046278 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000503887 (Chr6:125046181..125046278 +)
Downstram Exon
ENSMUSE00000500912 (Chr6:125047105..125047283 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon GTTGTTCAGAAGTGCGTCCA Chr6:125047264..125047283 59.88 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000691506 Chr6:125045999..125046278 GGTTGGAGTTGGTTGAGGTT Chr6:125046081..125046100 58.89 50
upstream ENSMUSE00000691491 Chr6:125046180..125046278 No primer for this exon
upstream ENSMUSE00000503887 Chr6:125046181..125046278 No primer for this exon

*** Putative Vector Insertion (Chr 6: 125046279 - 125047104) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000500912 Chr6:125047105..125047283 GTTGTTCAGAAGTGCGTCCA Chr6:125047264..125047283 59.88 50
downstream ENSMUSE00000720777 Chr6:125047105..125047283 GTTGTTCAGAAGTGCGTCCA Chr6:125047264..125047283 59.88 50
downstream ENSMUSE00000497952 Chr6:125050486..125050607 TCGGATAAATCCTCGTCTGG Chr6:125050522..125050541 60.03 50
downstream ENSMUSE00000691490 Chr6:125050796..125051011 AGCTGCCGGCATAAGAGTAA Chr6:125050821..125050840 60 50
downstream ENSMUSE00000496808 Chr6:125050817..125051011 ATAGTCGCTGCCCTCACTGT Chr6:125050906..125050925 59.9 55
downstream ENSMUSE00000494719 Chr6:125051236..125051354 GCTGAAGGCCTTGTAGTTGG Chr6:125051346..125051365 59.88 55
downstream ENSMUSE00000427389 Chr6:125051471..125051712 GGGCGACTTCAGTAGCTGTC Chr6:125051658..125051677 60.02 60
downstream ENSMUSE00000427385 Chr6:125051900..125052027 CCTCCCAGCTTGATCTTCAG Chr6:125052002..125052021 59.94 55
downstream ENSMUSE00000427380 Chr6:125052181..125052316 CTTACGGCTCCGACTACTGC Chr6:125052288..125052307 60.04 60
downstream ENSMUSE00000427376 Chr6:125052450..125052628 CACCTCGCAATAGTCCTGGT Chr6:125052514..125052533 60.13 55
downstream ENSMUSE00000691502 Chr6:125052489..125052628 CACCTCGCAATAGTCCTGGT Chr6:125052514..125052533 60.13 55
downstream ENSMUSE00000427372 Chr6:125052811..125053050 CCAGAATCTCCTCACCCTCA Chr6:125052874..125052893 60.19 55
downstream ENSMUSE00000427369 Chr6:125054885..125055088 CTTTGCCCTTAAGAGCTGGA Chr6:125054909..125054928 59.59 50
downstream ENSMUSE00000519184 Chr6:125055194..125055399 GAAGCGCTCTTCCATCTCTG Chr6:125055346..125055365 60.24 55
downstream ENSMUSE00000427361 Chr6:125056427..125056558 TAGTGAACGTGGCCCTTCTT Chr6:125056456..125056475 59.73 50
downstream ENSMUSE00000427354 Chr6:125056658..125056754 CCAGTTTCCGTAGCTTCACC Chr6:125056728..125056747 59.73 55
downstream ENSMUSE00000427347 Chr6:125057486..125057677 GCTGTCGCTCATACTTCACG Chr6:125057513..125057532 59.62 55
downstream ENSMUSE00000111866 Chr6:125058299..125058499 GAACTCATTTTCCCGGATGA Chr6:125058451..125058470 59.87 45
downstream ENSMUSE00000427338 Chr6:125058677..125058814 GCAGGCCCAGTCAATAGAAC Chr6:125058772..125058791 59.7 55
downstream ENSMUSE00000427333 Chr6:125059070..125059191 GGGGTGAGAAAGTTGAGCAG Chr6:125059182..125059201 59.84 55
downstream ENSMUSE00000506771 Chr6:125059310..125059483 CTGGTCCTCTTTGGCAATGT Chr6:125059364..125059383 60.11 50
downstream ENSMUSE00000396277 Chr6:125059797..125059938 GATAAGGGTGGTTGCAGCAT Chr6:125059921..125059940 59.96 50
downstream ENSMUSE00000427320 Chr6:125060029..125060160 TAGGGCACTGCCATCATACA Chr6:125060076..125060095 60.1 50
downstream ENSMUSE00000466983 Chr6:125060271..125060388 TTCCCAGTGATTCCACCATC Chr6:125060359..125060378 60.72 50
downstream ENSMUSE00000466000 Chr6:125063483..125063607 AGCTCGAGTGGAAAGCAAGA Chr6:125063529..125063548 60.28 50
downstream ENSMUSE00000197558 Chr6:125063918..125064155 AATACGGTGGGCTCTGCTAA Chr6:125063944..125063963 59.73 50
downstream ENSMUSE00000427306 Chr6:125064309..125064484 TCTCATCCTGGTTTCGATCC Chr6:125064401..125064420 60.01 50
downstream ENSMUSE00000463872 Chr6:125070223..125070403 CGGGCTAGATCTTCTTGCTG Chr6:125070338..125070357 60.11 55
downstream ENSMUSE00000197550 Chr6:125070488..125070574 GGCCACTGAGTAATCGGACT Chr6:125070537..125070556 59.17 55
downstream ENSMUSE00000197562 Chr6:125070662..125070750 GGCCAACAGAGGAGGTAATG Chr6:125070732..125070751 59.55 55
downstream ENSMUSE00000197551 Chr6:125070858..125070991 TGCCTCGAAGATCTCTCACA Chr6:125070975..125070994 59.66 50
downstream ENSMUSE00000551277 Chr6:125071291..125071435 TCACACAAATGTCGCATGAA Chr6:125071329..125071348 59.68 40
downstream ENSMUSE00000197557 Chr6:125071534..125071699 ATGCTCCAGCGTCCATTAAC Chr6:125071574..125071593 60.1 50
downstream ENSMUSE00000197563 Chr6:125071950..125072047 GCCTCAGGGGCTGTAGATTT Chr6:125072040..125072059 60.6 55
downstream ENSMUSE00000197560 Chr6:125072141..125072300 TCACCTCTGCCTTTTCCACT Chr6:125072264..125072283 59.84 50
downstream ENSMUSE00000197556 Chr6:125072495..125072566 TACCGCAGACTTCTCCTCCA Chr6:125072538..125072557 60.93 55
downstream ENSMUSE00000197552 Chr6:125072836..125072973 GCATCACGTCCTTTTTCTCC Chr6:125072877..125072896 59.68 50
downstream ENSMUSE00000197555 Chr6:125073358..125073466 CGGTGCCAGATCTCGTAAGT Chr6:125073433..125073452 60.28 55
downstream ENSMUSE00000197565 Chr6:125073567..125073699 TACCGTGGGTCATTCTGGAT Chr6:125073614..125073633 60.19 50
downstream ENSMUSE00000483260 Chr6:125078810..125079005 CATCGACTCCTTGGACAGGT Chr6:125078971..125078990 60.11 55
downstream ENSMUSE00000399096 Chr6:125079838..125080517 TGTAACCTCACAGCGACTGG Chr6:125079940..125079959 59.9 55
downstream ENSMUSE00000691489 Chr6:125079838..125080609 TGTAACCTCACAGCGACTGG Chr6:125079940..125079959 59.9 55
downstream ENSMUSE00000691498 Chr6:125079838..125080603 TGTAACCTCACAGCGACTGG Chr6:125079940..125079959 59.9 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTCTCTCAGCCCGACGTCTA Chr6:125046312..125046332 60.69 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ACGTCCGTGACTGGGAAAAC Chr6:125046325..125046345 62.3 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000063870