Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI32557
Trapped Gene
Dnm2 (ENSMUSG00000033335)
Vector Insertion
Chr 9: 21281053 - 21282724
Public Clones IST12265C1 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 43% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000584893 (Chr9:21280917..21281052 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CCCGCATCAATCGTATCTTT Chr9:21281003..21281022 59.92 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000584893 (Chr9:21280917..21281052 +)
Downstram Exon
ENSMUSE00000638335 (Chr9:21282725..21282787 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CCCGCATCAATCGTATCTTT Chr9:21281003..21281022 59.92 45 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000476895 Chr9:21229415..21229700 ACATCGGAACCGAGAGTCTT Chr9:21229487..21229506 58.74 50
upstream ENSMUSE00000584899 Chr9:21261947..21262020 CTTCCTTCCACGAGGATCAG Chr9:21261950..21261969 59.8 55
upstream ENSMUSE00000584898 Chr9:21270026..21270175 TATGCGGAATTTTTGCACTG Chr9:21270028..21270047 59.7 40
upstream ENSMUSE00000584897 Chr9:21271976..21272179 CTCCCAGGCATCACTAAGGT Chr9:21271999..21272018 59.16 55
upstream ENSMUSE00000584896 Chr9:21275787..21275885 TCGGTGTCATCACCAAGCTA Chr9:21275799..21275818 60.26 50
upstream ENSMUSE00000584895 Chr9:21277057..21277217 AGAAAGACATCGAGGGCAAA Chr9:21277084..21277103 59.81 45
upstream ENSMUSE00000638336 Chr9:21278976..21279118 ACCAACCACATCCGAGAGTC Chr9:21278982..21279001 59.97 55
upstream ENSMUSE00000584893 Chr9:21280917..21281052 CCCGCATCAATCGTATCTTT Chr9:21281003..21281022 59.92 45

*** Putative Vector Insertion (Chr 9: 21281053 - 21282724) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000638335 Chr9:21282725..21282787 No primer for this exon
downstream ENSMUSE00000702744 Chr9:21282725..21282792 No primer for this exon
downstream ENSMUSE00000638334 Chr9:21283038..21283042 No primer for this exon
downstream ENSMUSE00000584892 Chr9:21283343..21283481 CAGGGCTCTTTCAGCTTGAC Chr9:21283420..21283439 60.13 55
downstream ENSMUSE00000638333 Chr9:21284851..21284989 GACACCACCAGGTCAACACA Chr9:21284955..21284974 60.48 55
downstream ENSMUSE00000584891 Chr9:21285777..21285863 CCTTCTCGCTCCCTGATGTA Chr9:21285850..21285869 60.35 55
downstream ENSMUSE00000584890 Chr9:21290095..21290165 TTGGCAAATCCAATGAAGTC Chr9:21290168..21290187 58.55 40
downstream ENSMUSE00000584889 Chr9:21294187..21294238 GGGTATGGCCCTCTTCTTGT Chr9:21294235..21294254 60.33 55
downstream ENSMUSE00000702763 Chr9:21295102..21295113 No primer for this exon
downstream ENSMUSE00000638331 Chr9:21298948..21299061 GCTGTCAGCACGAACCAGTA Chr9:21299033..21299052 60.06 55
downstream ENSMUSE00000638330 Chr9:21303702..21303811 AAACACGTGCTTGTTGGACA Chr9:21303791..21303810 60.2 45
downstream ENSMUSE00000584885 Chr9:21304702..21304813 CTGGGAGTCACAAGCCAGTT Chr9:21304753..21304772 60.3 55
downstream ENSMUSE00000638329 Chr9:21307986..21308150 CACGGATGGACTTGTTGATG Chr9:21308112..21308131 59.96 50
downstream ENSMUSE00000584881 Chr9:21308874..21309106 CTCCTTCAGTGCGTGGTACA Chr9:21309011..21309030 59.9 55
downstream ENSMUSE00000584860 Chr9:21309908..21310159 GTGCACACTGGACACAGGTC Chr9:21309947..21309966 60.22 60
downstream ENSMUSE00000584869 Chr9:21310777..21311568 TCATACAGCCCAAACCACAA Chr9:21311419..21311438 59.96 45
downstream ENSMUSE00000584874 Chr9:21310780..21310846 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGTCTTTGTAATCGCCTTGC Chr9:21281096..21281116 59.71 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATCTTTCATGAGCGCTTTCC Chr9:21281018..21281038 59.42 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000033335