Tools for the biologist enabling optimized use of gene trap clones
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About
UniTrap UNI1901
Trapped Gene
Hnrnpul1 (
ENSMUSG00000040725
)
Vector Insertion
Chr 7: 26511923 - 26518034
Public Clones
AY0354 (sanger)
AR0147 (sanger)
Private Clones
OST432578 (lexicon)
Severity of mutation
(?)
Insertion after 100% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000313137 (Chr7:26518035..26518163 -)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
TGCCTCAACCGTCTTATTCA
Chr7:26518075..26518094
59.27
45
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000313137 (Chr7:26518035..26518163 -)
Downstram Exon
ENSMUSE00000313129 (Chr7:26511754..26511922 -)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
TGCCTCAACCGTCTTATTCA
Chr7:26518075..26518094
59.27
45
GTCTCTGGGCTGACCCATAA
Chr7:26511873..26511892
60.07
55
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000457808
Chr7:26539360..26539720
ACAACAACGAGGAGGTCGAG
Chr7:26539460..26539479
60.3
55
upstream
ENSMUSE00000676624
Chr7:26539360..26539749
GGTTACCTGGGCACAACAAC
Chr7:26539472..26539491
60.28
55
upstream
ENSMUSE00000313197
Chr7:26535884..26536009
CGAGACACCAGTCATCAAGC
Chr7:26535953..26535972
59.42
55
upstream
ENSMUSE00000313188
Chr7:26533342..26533495
GTACTTCGAGCACCGAGAGG
Chr7:26533349..26533368
60.01
60
upstream
ENSMUSE00000313182
Chr7:26531367..26531440
CTCAGCCTCCTGCTGAAGAG
Chr7:26531410..26531429
60.42
60
upstream
ENSMUSE00000313175
Chr7:26530112..26530251
ATTGACGATTGAGGGCTTTG
Chr7:26530180..26530199
60.07
45
upstream
ENSMUSE00000313167
Chr7:26527946..26528045
CTCCGTGAAGCATCTTCCAT
Chr7:26528012..26528031
60.22
50
upstream
ENSMUSE00000313159
Chr7:26525847..26525959
AACGATGTGATTGGCTGCTT
Chr7:26525851..26525870
60.67
45
upstream
ENSMUSE00000676620
Chr7:26521616..26521780
AATTGCAGGTGTGAGCCATT
Chr7:26521754..26521773
60.53
45
upstream
ENSMUSE00000313151
Chr7:26519578..26519844
ACCAAGAATGGCAAGTGGAT
Chr7:26519789..26519808
59.41
45
upstream
ENSMUSE00000313143
Chr7:26518263..26518385
CTGGGTACCAATGCCATCAT
Chr7:26518276..26518295
60.6
50
upstream
ENSMUSE00000313137
Chr7:26518035..26518163
TGCCTCAACCGTCTTATTCA
Chr7:26518075..26518094
59.27
45
*** Putative Vector Insertion (Chr 7: 26511923 - 26518034) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000313129
Chr7:26511754..26511922
GTCTCTGGGCTGACCCATAA
Chr7:26511873..26511892
60.07
55
downstream
ENSMUSE00000313124
Chr7:26510943..26511233
TCGTTGTATTGCCTCACCAG
Chr7:26511112..26511131
59.72
50
downstream
ENSMUSE00000313118
Chr7:26509574..26509863
CCTCGGTTGTTGGAGTTGTT
Chr7:26509757..26509776
60.01
50
downstream
ENSMUSE00000313111
Chr7:26507825..26508016
GGGCCATAGCTCCCATAGTT
Chr7:26507885..26507904
60.31
55
downstream
ENSMUSE00000395476
Chr7:26506517..26507382
TCCAACTGAACAGACGCTTG
Chr7:26506535..26506554
60.03
50
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
PCR 1
GAGGGGTGGAAACGTAGTCAT
Chr7:26514982..26515003
60.24
52.38
L232
GATGTGCTGCAAGGCGATTA
Gene trap vector
PCR 2
TGATGGTTTCCCTCGTGACT
Chr7:26514976..26514996
60.51
50
LacZ
CCAGGGTTTTCCCAGTCACG
Gene trap vector
Come back to gene
ENSMUSG00000040725