Tools for the biologist enabling optimized use of gene trap clones
Homepage
|
Blast Search
|
GO Search
|
Advanced Search
|
About
UniTrap UNI13299
Trapped Gene
Rbm42 (
ENSMUSG00000036733
)
Vector Insertion
Chr 7: 31434739 - 31434956
Public Clones
CMHD-GT_329F12-3 (cmhd)
Private Clones
not available
Severity of mutation
(?)
Insertion after 9% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000675741 (Chr7:31434957..31435163 -)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
AAAGAAATGGAGGCGGAGAT
Chr7:31434963..31434982
60.04
45
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000675741 (Chr7:31434957..31435163 -)
Downstram Exon
ENSMUSE00000242805 (Chr7:31434603..31434738 -)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
AAAGAAATGGAGGCGGAGAT
Chr7:31434963..31434982
60.04
45
GATAATTGGGCGGATCACAG
Chr7:31434602..31434621
60.3
50
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000242812
Chr7:31434957..31435184
AAAGAAATGGAGGCGGAGAT
Chr7:31434963..31434982
60.04
45
upstream
ENSMUSE00000675741
Chr7:31434957..31435163
AAAGAAATGGAGGCGGAGAT
Chr7:31434963..31434982
60.04
45
upstream
ENSMUSE00000675743
Chr7:31434957..31435336
AAAGAAATGGAGGCGGAGAT
Chr7:31434963..31434982
60.04
45
*** Putative Vector Insertion (Chr 7: 31434739 - 31434956) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000242805
Chr7:31434603..31434738
GATAATTGGGCGGATCACAG
Chr7:31434602..31434621
60.3
50
downstream
ENSMUSE00000242800
Chr7:31432750..31432834
CCATGGGAGGAACAACTGTG
Chr7:31432755..31432774
61.37
55
downstream
ENSMUSE00000242796
Chr7:31432579..31432653
CTCTCGAGCCTCAGGACTGT
Chr7:31432579..31432598
59.73
60
downstream
ENSMUSE00000242791
Chr7:31430938..31431003
No primer for this exon
downstream
ENSMUSE00000242784
Chr7:31430686..31430861
No primer for this exon
downstream
ENSMUSE00000675740
Chr7:31430686..31430840
TCTCAGAGCAGCCATAGAACC
Chr7:31430673..31430693
59.59
52.38
downstream
ENSMUSE00000242778
Chr7:31429845..31430177
GTGGACGGAGAGACAAGAGC
Chr7:31429873..31429892
59.99
60
downstream
ENSMUSE00000242772
Chr7:31429518..31429635
TTTCTCTGGCTTGCCTTTCT
Chr7:31429566..31429585
59.19
45
downstream
ENSMUSE00000242765
Chr7:31426327..31426521
GTTCACCTCATTGCCCAGAT
Chr7:31426456..31426475
59.93
50
downstream
ENSMUSE00000675744
Chr7:31426021..31426239
ATGCTTTTGCGAAGCTTGAT
Chr7:31426175..31426194
59.99
40
downstream
ENSMUSE00000412401
Chr7:31426018..31426239
ATGCTTTTGCGAAGCTTGAT
Chr7:31426175..31426194
59.99
40
downstream
ENSMUSE00000675742
Chr7:31426013..31426239
ATGCTTTTGCGAAGCTTGAT
Chr7:31426175..31426194
59.99
40
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
PCR 1
AAAGAAATGGAGGCGGAGAT
Chr7:31434961..31434981
60.04
45
L232
GATGTGCTGCAAGGCGATTA
Gene trap vector
PCR 2
AAAGAAATGGAGGCGGAGAT
Chr7:31434961..31434981
60.04
45
LacZ
CCAGGGTTTTCCCAGTCACG
Gene trap vector
Come back to gene
ENSMUSG00000036733