Tools for the biologist enabling optimized use of gene trap clones
Homepage
|
Blast Search
|
GO Search
|
Advanced Search
|
About
UniTrap UNI19544
Trapped Gene
Cdc5l (
ENSMUSG00000023932
)
Vector Insertion
Chr 17: 45529254 - 45529941
Public Clones
not available
Private Clones
OST389220 (lexicon)
OST45426 (lexicon)
OST43221 (lexicon)
Severity of mutation
(?)
Insertion after 96% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000396781 (Chr17:45529942..45530154 -)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
TGGAGCTACGCACTTTTGAA
Chr17:45529987..45530006
59.61
45
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000396781 (Chr17:45529942..45530154 -)
Downstram Exon
ENSMUSE00000543072 (Chr17:45528841..45529253 -)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
TGGAGCTACGCACTTTTGAA
Chr17:45529987..45530006
59.61
45
ACGGTGCTGGGTAACTTGTC
Chr17:45529027..45529046
60.03
55
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000502094
Chr17:45570340..45570686
GCGCCGTTACTACTTTCTCG
Chr17:45570427..45570446
60.04
55
upstream
ENSMUSE00000136462
Chr17:45564888..45564991
GATTGCCTCATTGCTGCATA
Chr17:45564919..45564938
59.8
45
upstream
ENSMUSE00000402096
Chr17:45563469..45563630
No primer for this exon
upstream
ENSMUSE00000389518
Chr17:45562801..45562928
CCCGATAGACATGGATGAGG
Chr17:45562801..45562820
60.29
55
upstream
ENSMUSE00000543081
Chr17:45561450..45561549
CGTCTGGCCAATACTCAAGG
Chr17:45561498..45561517
60.65
55
upstream
ENSMUSE00000136475
Chr17:45556550..45556768
AAGACGAGAGCTTCGAGCAG
Chr17:45556728..45556747
60.03
55
upstream
ENSMUSE00000367198
Chr17:45553894..45554038
CATCAGCTATCCTCCAAACCA
Chr17:45553950..45553970
60.08
47.62
upstream
ENSMUSE00000607325
Chr17:45552502..45552690
CAGCATCGCTCTGAGAACAC
Chr17:45552537..45552556
59.73
55
upstream
ENSMUSE00000136467
Chr17:45550071..45550219
GTGGGCTTAATACCCCACTG
Chr17:45550151..45550170
59.31
55
upstream
ENSMUSE00000394171
Chr17:45548777..45548939
CTAATGCCACCCCAGGTAGA
Chr17:45548858..45548877
59.95
55
upstream
ENSMUSE00000136466
Chr17:45547723..45547887
CTGAAAATGCCGAGAAGGAA
Chr17:45547789..45547808
60.32
45
upstream
ENSMUSE00000136463
Chr17:45545285..45545365
GATGCTGAGCGTGTAAAGGA
Chr17:45545337..45545356
59.03
50
upstream
ENSMUSE00000312815
Chr17:45544745..45544987
CCCTACGAACCATCTGGAAA
Chr17:45544848..45544867
59.93
50
upstream
ENSMUSE00000312798
Chr17:45541543..45541740
GCCGCTACACTCGTGCTAAT
Chr17:45541591..45541610
60.44
55
upstream
ENSMUSE00000396781
Chr17:45529942..45530154
TGGAGCTACGCACTTTTGAA
Chr17:45529987..45530006
59.61
45
*** Putative Vector Insertion (Chr 17: 45529254 - 45529941) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000543072
Chr17:45528841..45529253
ACGGTGCTGGGTAACTTGTC
Chr17:45529027..45529046
60.03
55
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
PCR 1
ACAGCATGTGTTGCCTGATG
Chr17:45529917..45529937
60.76
50
L232
GATGTGCTGCAAGGCGATTA
Gene trap vector
PCR 2
ACAGCATGTGTTGCCTGATG
Chr17:45529917..45529937
60.76
50
LacZ
CCAGGGTTTTCCCAGTCACG
Gene trap vector
Come back to gene
ENSMUSG00000023932