Tools for the biologist enabling optimized use of gene trap clones
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About
UniTrap UNI1733
Trapped Gene
Arrdc3 (
ENSMUSG00000074794
)
Vector Insertion
Chr 13: 81023191 - 81026666
Public Clones
CG0361 (sanger)
CSE536 (baygenomics)
CSE537 (baygenomics)
IST14949G5 (tigm)
IST11406G2 (tigm)
Private Clones
not available
Severity of mutation
(?)
Insertion after 22% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000641035 (Chr13:81022671..81023190 +)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
GATCCTGCCTGCATGATTTT
Chr13:81022778..81022797
60.04
45
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000641035 (Chr13:81022671..81023190 +)
Downstram Exon
ENSMUSE00000641034 (Chr13:81026667..81026748 +)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
GATCCTGCCTGCATGATTTT
Chr13:81022778..81022797
60.04
45
GGAAGCTCGAAGCTAAATGC
Chr13:81026745..81026764
59.21
50
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000641035
Chr13:81022671..81023190
GATCCTGCCTGCATGATTTT
Chr13:81022778..81022797
60.04
45
*** Putative Vector Insertion (Chr 13: 81023191 - 81026666) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000641034
Chr13:81026667..81026748
GGAAGCTCGAAGCTAAATGC
Chr13:81026745..81026764
59.21
50
downstream
ENSMUSE00000641033
Chr13:81028350..81028497
GCCTTCGAATGAGGTAGCAA
Chr13:81028377..81028396
60.35
50
downstream
ENSMUSE00000641029
Chr13:81029357..81029459
GGTGTAGCCCTTCCTTTCAA
Chr13:81029458..81029477
59.17
50
downstream
ENSMUSE00000641028
Chr13:81029795..81030051
GCACTACCATTCGGGAAGAG
Chr13:81029854..81029873
59.69
55
downstream
ENSMUSE00000641027
Chr13:81030323..81030485
GCTCACACTTGAGGTTCTGCT
Chr13:81030429..81030449
59.66
52.38
downstream
ENSMUSE00000641025
Chr13:81030749..81030903
AGGAACCGAAACTCCTGGAT
Chr13:81030884..81030903
59.94
50
downstream
ENSMUSE00000641024
Chr13:81032631..81035290
ATGGTAGTGAGTGCCCAAGG
Chr13:81034865..81034884
59.99
55
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
PCR 1
TTAATTGGGCACGAAAGAGG
Chr13:81023173..81023193
60.07
45
L232
GATGTGCTGCAAGGCGATTA
Gene trap vector
PCR 2
TGGGCACGAAAGAGGTAAGT
Chr13:81023178..81023198
59.73
50
LacZ
CCAGGGTTTTCCCAGTCACG
Gene trap vector
Come back to gene
ENSMUSG00000074794