Tools for the biologist enabling optimized use of gene trap clones
Homepage
|
Blast Search
|
GO Search
|
Advanced Search
|
About
UniTrap UNI4645
Trapped Gene
Phf3 (
ENSMUSG00000048874
)
Vector Insertion
Chr 1: 30876925 - 30877083
Public Clones
AQ0010 (sanger)
Private Clones
not available
Severity of mutation
(?)
Insertion after 45% of polypeptide chain
Suggested RT-PCR
(?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000315459 (Chr1:30876926..30877082 -)
Vector Sequence
Forward Primer
Location
Tm
%GC
LacZrt Reverse Primer
Location
GCAAAGGTTGCCACAAAAAT
Chr1:30877023..30877042
59.98
40
TGGCGAAAGGGGGATGTG
Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000315459 (Chr1:30876926..30877082 -)
Downstram Exon
ENSMUSE00000702068 (Chr1:30876926..30877082 -)
Forward Primer
Location
Tm
%GC
Reverse Primer
Location
Tm
%GC
GCAAAGGTTGCCACAAAAAT
Chr1:30877023..30877042
59.98
40
TTTTTGTGGCAACCTTTGCT
Chr1:30877002..30877021
60.65
40
Other possible Exon-Primers for RT-PCR
(?)
Exon ID
Exon location
Forward Primer
Primer location
Tm
%GC
upstream
ENSMUSE00000630485
Chr1:30919832..30920101
GCAATGATCCCAATTTCCAG
Chr1:30919848..30919867
60.27
45
upstream
ENSMUSE00000630484
Chr1:30893950..30894111
TCACCTCGTTTAATGGCACA
Chr1:30893952..30893971
60.11
45
upstream
ENSMUSE00000315372
Chr1:30886705..30887316
CAGCCGAAGTTTTTCTCTGG
Chr1:30886827..30886846
59.99
50
upstream
ENSMUSE00000630482
Chr1:30886688..30886702
No primer for this exon
upstream
ENSMUSE00000630483
Chr1:30886688..30888404
AACACTGGGCTATGGTGAGG
Chr1:30887640..30887659
59.99
55
upstream
ENSMUSE00000604101
Chr1:30881055..30881364
AGCCCACAGCGAAGATAAAA
Chr1:30881159..30881178
59.85
45
upstream
ENSMUSE00000630481
Chr1:30881055..30881364
AGCCCACAGCGAAGATAAAA
Chr1:30881159..30881178
59.85
45
upstream
ENSMUSE00000468070
Chr1:30877976..30878159
No primer for this exon
upstream
ENSMUSE00000630480
Chr1:30877976..30878159
No primer for this exon
upstream
ENSMUSE00000315471
Chr1:30877528..30877672
GCTACTTCCAAGCCTTCTGC
Chr1:30877582..30877601
59.22
55
upstream
ENSMUSE00000702069
Chr1:30877528..30877672
GCTACTTCCAAGCCTTCTGC
Chr1:30877582..30877601
59.22
55
upstream
ENSMUSE00000315459
Chr1:30876926..30877082
GCAAAGGTTGCCACAAAAAT
Chr1:30877023..30877042
59.98
40
upstream
ENSMUSE00000702068
Chr1:30876926..30877082
GCAAAGGTTGCCACAAAAAT
Chr1:30877023..30877042
59.98
40
*** Putative Vector Insertion (Chr 1: 30876925 - 30877083) ***
Exon ID
Exon location
Reverse Primer
Primer location
Tm
%GC
downstream
ENSMUSE00000315449
Chr1:30873313..30873429
CTGTTCTCCCTTCGTCTCCA
Chr1:30873295..30873314
60.38
55
downstream
ENSMUSE00000702067
Chr1:30873313..30873429
CTGTTCTCCCTTCGTCTCCA
Chr1:30873295..30873314
60.38
55
downstream
ENSMUSE00000476485
Chr1:30870805..30870936
TCGTGATTGGTCGTCTTTCC
Chr1:30870860..30870879
61.05
50
downstream
ENSMUSE00000551418
Chr1:30870416..30870936
TCCTACCTGGATCTCGATGG
Chr1:30870777..30870796
60.03
55
downstream
ENSMUSE00000315429
Chr1:30869862..30869997
No primer for this exon
downstream
ENSMUSE00000349139
Chr1:30868617..30868812
TTGAAGACAACGCATCTGCT
Chr1:30868674..30868693
59.6
45
downstream
ENSMUSE00000398107
Chr1:30867528..30867675
GTTCAATCGAGCCAGAAAGG
Chr1:30867599..30867618
59.81
50
downstream
ENSMUSE00000315573
Chr1:30865568..30865657
TGCCACCTACTTGAATGCTG
Chr1:30865605..30865624
59.86
50
downstream
ENSMUSE00000315566
Chr1:30863014..30863209
ACACCATAGCGCTTTCTGCT
Chr1:30863090..30863109
60.04
50
downstream
ENSMUSE00000410830
Chr1:30859187..30862787
CCTCTCTTAGGCCGTGTCTG
Chr1:30859804..30859823
60.01
60
Suggested Genomic-PCR
(?)
Forward
Forward location
Tm
%GC
Reverse name
Reverse
Reverse Location
No PCR available
Come back to gene
ENSMUSG00000048874