Tools for the biologist enabling optimized use of gene trap clones
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About
UniTrap UNI13945
Trapped Gene
Defb5 (
ENSMUSG00000039785
)
Vector Insertion
Chr 8: 19250695 - 19250829
Public Clones
CMHD-GT_143D3-3 (cmhd)
CMHD-GT_439D2-3 (cmhd)
CMHD-GT_165A3-3 (cmhd)
CMHD-GT_389H2-3 (cmhd)
CMHD-GT_134F10-3 (cmhd)
CMHD-GT_416G6-3 (cmhd)
CMHD-GT_152H4-3 (cmhd)
CMHD-GT_140C12-3 (cmhd)
CMHD-GT_415C11-3 (cmhd)
Private Clones
OST27416 (lexicon)
OST3508 (lexicon)
OST2166 (lexicon)
Severity of mutation
(?)
Insertion after 32% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000718256 (Chr8:19250696..19250828 +)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
ATCTGTGCAAGGGCAACATT
Chr8:19250755..19250774
60.53
45
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000718256 (Chr8:19250696..19250828 +)
Downstram Exon
ENSMUSE00000711448 (Chr8:19250696..19250828 +)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
ATCTGTGCAAGGGCAACATT
Chr8:19250755..19250774
60.53
45
AATGTTGCCCTTGCACAGAT
Chr8:19250777..19250796
60.53
45
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000685266
Chr8:19247580..19247653
CAGGCTTCAGCCATGAAGAT
Chr8:19247580..19247599
60.36
50
upstream
ENSMUSE00000225796
Chr8:19247592..19247649
ATTTCTCCTGGTGCTGCTGT
Chr8:19247618..19247637
59.87
50
upstream
ENSMUSE00000685268
Chr8:19249842..19249845
No primer for this exon
*** Putative Vector Insertion (Chr 8: 19250695 - 19250829) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000711448
Chr8:19250696..19250828
AATGTTGCCCTTGCACAGAT
Chr8:19250777..19250796
60.53
45
downstream
ENSMUSE00000718256
Chr8:19250696..19250828
AATGTTGCCCTTGCACAGAT
Chr8:19250777..19250796
60.53
45
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
PCR 1
TGACCTGGCACTTTCAATTC
Chr8:19250646..19250666
58.7
45
L232
GATGTGCTGCAAGGCGATTA
Gene trap vector
PCR 2
GTATGATTGGAGGCCGTGAC
Chr8:19250732..19250752
60.35
55
LacZ
CCAGGGTTTTCCCAGTCACG
Gene trap vector
Come back to gene
ENSMUSG00000039785