Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI16336
Trapped Gene
Dhx30 (ENSMUSG00000032480)
Vector Insertion
Chr 9: 110011626 - 110015474
Public Clones not available
Private Clones OST462958 (lexicon) OST457861 (lexicon) OST337909 (lexicon) OST319340 (lexicon)
OST281456 (lexicon) OST281438 (lexicon) OST264539 (lexicon) OST243699 (lexicon)
OST239259 (lexicon) OST239247 (lexicon) OST162062 (lexicon)
Severity of mutation (?) Insertion after 3% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000398205 (Chr9:110015475..110015529 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CTCTCCTGGCCAGAAATGTT Chr9:110015498..110015517 59.28 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000398205 (Chr9:110015475..110015529 -)
Downstram Exon
ENSMUSE00000346996 (Chr9:110011530..110011625 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CTCTCCTGGCCAGAAATGTT Chr9:110015498..110015517 59.28 50 GACACACATGGGTGGAAGAC Chr9:110011539..110011558 58.78 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000690106 Chr9:110019862..110019926 CACCGAGGCTTGTTTCACAT Chr9:110019874..110019893 61.1 50
upstream ENSMUSE00000395894 Chr9:110017995..110018086 CAGCCTCGTGATGAGGAATAG Chr9:110018060..110018080 59.85 52.38
upstream ENSMUSE00000711781 Chr9:110017540..110017665 GCATGGTGACTCCTGTCTGT Chr9:110017564..110017583 58.67 55
upstream ENSMUSE00000718544 Chr9:110017540..110017665 GCATGGTGACTCCTGTCTGT Chr9:110017564..110017583 58.67 55
upstream ENSMUSE00000398205 Chr9:110015475..110015529 CTCTCCTGGCCAGAAATGTT Chr9:110015498..110015517 59.28 50
upstream ENSMUSE00000529336 Chr9:110015475..110015594 CTCTCCTGGCCAGAAATGTT Chr9:110015498..110015517 59.28 50

*** Putative Vector Insertion (Chr 9: 110011626 - 110015474) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000346996 Chr9:110011530..110011625 GACACACATGGGTGGAAGAC Chr9:110011539..110011558 58.78 55
downstream ENSMUSE00000311417 Chr9:110003320..110003530 AGAGCGGACAAAGCTTGATG Chr9:110003380..110003399 60.54 50
downstream ENSMUSE00000219974 Chr9:110001233..110001363 TCCAATCACGCTGTTGAGAA Chr9:110001280..110001299 60.39 45
downstream ENSMUSE00000311372 Chr9:109999593..109999703 ATCTTCTTGCTGCCATAGCC Chr9:109999617..109999636 59.44 50
downstream ENSMUSE00000219988 Chr9:109995362..109995663 AAACAGCTCATTCCGTGGTC Chr9:109995606..109995625 60.12 50
downstream ENSMUSE00000219991 Chr9:109994820..109994940 GGAGGAGGTTGCAATCTGAA Chr9:109994810..109994829 60.19 50
downstream ENSMUSE00000219977 Chr9:109993923..109994072 AACAAAGGTCATGGGACAGG Chr9:109993967..109993986 59.82 50
downstream ENSMUSE00000219975 Chr9:109991057..109991209 CTGGGTCTCACCCAACTCAC Chr9:109991101..109991120 60.56 60
downstream ENSMUSE00000219983 Chr9:109989934..109990770 CACATAGCGCTCCAATAGCA Chr9:109990413..109990432 60 50
downstream ENSMUSE00000436137 Chr9:109989624..109989699 GCAGAACCAGGTCAGTCACA Chr9:109989626..109989645 59.87 55
downstream ENSMUSE00000219992 Chr9:109989606..109989699 GCAGAACCAGGTCAGTCACA Chr9:109989626..109989645 59.87 55
downstream ENSMUSE00000219982 Chr9:109989436..109989540 GATTTCTTGCCAGCCAGGTA Chr9:109989481..109989500 60.21 50
downstream ENSMUSE00000436127 Chr9:109989035..109989210 AATCTTGCGTACCCCAAGTG Chr9:109989118..109989137 59.99 50
downstream ENSMUSE00000219987 Chr9:109988986..109989213 AATCTTGCGTACCCCAAGTG Chr9:109989118..109989137 59.99 50
downstream ENSMUSE00000219986 Chr9:109988624..109988830 CTCCTCGGGAACAAGTGGTA Chr9:109988702..109988721 60.1 55
downstream ENSMUSE00000219979 Chr9:109988454..109988535 AATCTCCTGGAGCAGGATCA Chr9:109988433..109988452 59.76 50
downstream ENSMUSE00000219972 Chr9:109988189..109988382 CAGTCGGGGGTCAGTAGAGA Chr9:109988287..109988306 60.25 60
downstream ENSMUSE00000529329 Chr9:109988189..109988379 CAGTCGGGGGTCAGTAGAGA Chr9:109988287..109988306 60.25 60
downstream ENSMUSE00000219984 Chr9:109987916..109988075 AGTTTTCCCTGGAGGTACGG Chr9:109987942..109987961 60.35 55
downstream ENSMUSE00000690080 Chr9:109987907..109988075 AGTTTTCCCTGGAGGTACGG Chr9:109987942..109987961 60.35 55
downstream ENSMUSE00000436115 Chr9:109987649..109987806 CTGGATGAGGTTGGGGTAGA Chr9:109987627..109987646 59.92 55
downstream ENSMUSE00000519887 Chr9:109987454..109987557 GAACTTGCCTTGCCGAGTAA Chr9:109987500..109987519 60.39 50
downstream ENSMUSE00000494213 Chr9:109987234..109987557 CTGGGAGGAATCTCGAACAA Chr9:109987263..109987282 60.19 50
downstream ENSMUSE00000219978 Chr9:109987233..109987372 GTCCCCATCTGTTAGGAGCA Chr9:109987224..109987243 60.07 55
downstream ENSMUSE00000501330 Chr9:109986825..109987150 GCTGTCTTGCGCATATCAAA Chr9:109986885..109986904 59.98 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGCCAGAAATGTTCAGCTTG Chr9:110012489..110012509 60.78 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGCCAGAAATGTTCAGCTTG Chr9:110012489..110012509 60.78 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032480