Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI15697
Trapped Gene
Arhgef1 (ENSMUSG00000040940)
Vector Insertion
Chr 7: 25710339 - 25710419
Public Clones PST3675-NL (escells)
Private Clones not available
Severity of mutation (?) Insertion after 93% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000316630 (Chr7:25710271..25710338 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CAGCTCTGAGAATGGCACTG Chr7:25710292..25710311 59.73 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000316630 (Chr7:25710271..25710338 +)
Downstram Exon
ENSMUSE00000316622 (Chr7:25710420..25710506 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CAGCTCTGAGAATGGCACTG Chr7:25710292..25710311 59.73 55 CAGAAGGGCAGGAGGTCATT Chr7:25710462..25710481 61.55 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000711973 Chr7:25687931..25688147 No primer for this exon
upstream ENSMUSE00000676693 Chr7:25688056..25688147 No primer for this exon
upstream ENSMUSE00000676703 Chr7:25689424..25689516 CTTCTCTTCCCATCCGACAG Chr7:25689497..25689516 59.8 55
upstream ENSMUSE00000716760 Chr7:25689426..25689516 CTTCTCTTCCCATCCGACAG Chr7:25689497..25689516 59.8 55
upstream ENSMUSE00000535991 Chr7:25692735..25692776 TCCTGGAGATGGGAGAAGTC Chr7:25692745..25692764 59.18 55
upstream ENSMUSE00000713033 Chr7:25692735..25692776 TCCTGGAGATGGGAGAAGTC Chr7:25692745..25692764 59.18 55
upstream ENSMUSE00000316794 Chr7:25692873..25692953 GATTTTGAGAACGAGCTGGAG Chr7:25692930..25692950 59.07 47.62
upstream ENSMUSE00000316790 Chr7:25693330..25693443 GCCAGTTCCAGAGCCTAGAG Chr7:25693349..25693368 59.19 60
upstream ENSMUSE00000316781 Chr7:25697076..25697174 No primer for this exon
upstream ENSMUSE00000316777 Chr7:25697329..25697371 CCCAGTGTCGCTTTTGAACT Chr7:25697350..25697369 60.29 50
upstream ENSMUSE00000316770 Chr7:25697574..25697820 GAGGCGGTTCATACAAGAGG Chr7:25697611..25697630 59.69 55
upstream ENSMUSE00000316763 Chr7:25698159..25698188 No primer for this exon
upstream ENSMUSE00000316759 Chr7:25698418..25698517 GACCAAGAGTGGGGACAAGA Chr7:25698469..25698488 60.09 55
upstream ENSMUSE00000316751 Chr7:25698639..25698735 GAATCGGAGGTCAGACGAAC Chr7:25698647..25698666 59.66 55
upstream ENSMUSE00000316744 Chr7:25701037..25701072 No primer for this exon
upstream ENSMUSE00000316738 Chr7:25701820..25701960 GGGTATGTCTTCTCGGGACA Chr7:25701857..25701876 59.93 55
upstream ENSMUSE00000636501 Chr7:25701823..25701960 GGGTATGTCTTCTCGGGACA Chr7:25701857..25701876 59.93 55
upstream ENSMUSE00000316731 Chr7:25702914..25703019 AGGACAATGGCGAGACTGAG Chr7:25702998..25703017 60.41 55
upstream ENSMUSE00000636500 Chr7:25703539..25703550 No primer for this exon
upstream ENSMUSE00000636499 Chr7:25704203..25704370 No primer for this exon
upstream ENSMUSE00000316725 Chr7:25704650..25704795 CCAGACACCCTGCTCAGTCT Chr7:25704738..25704757 60.46 60
upstream ENSMUSE00000316718 Chr7:25706890..25707036 CGGGTACTGCATGACCTCTT Chr7:25706928..25706947 60.13 55
upstream ENSMUSE00000316709 Chr7:25707344..25707426 CTGTTCCTCGATCGCTTGAT Chr7:25707346..25707365 60.36 50
upstream ENSMUSE00000316700 Chr7:25707560..25707685 GAAGATCTCCTCCCGCTTCT Chr7:25707589..25707608 59.92 55
upstream ENSMUSE00000316692 Chr7:25707826..25707940 ACCAAGTACCCACTGCTGCT Chr7:25707898..25707917 59.79 55
upstream ENSMUSE00000316681 Chr7:25708029..25708129 ACAGAACGAGGGAAAGTGGA Chr7:25708037..25708056 59.7 50
upstream ENSMUSE00000316670 Chr7:25708383..25708460 ACCCTATGCTGAGCGAGTTC Chr7:25708438..25708457 59.46 55
upstream ENSMUSE00000316663 Chr7:25708678..25708753 GGCGAGTGACCAAAGACAAA Chr7:25708727..25708746 61.22 50
upstream ENSMUSE00000316655 Chr7:25708822..25708989 GAGAGGCTGCTGCTCAAGTC Chr7:25708875..25708894 60.44 60
upstream ENSMUSE00000316647 Chr7:25709815..25709902 ACATCTTCGGAACGCAAAAA Chr7:25709883..25709902 60.62 40
upstream ENSMUSE00000316638 Chr7:25709995..25710081 ACTGCTGGATCCCTGAAGGT Chr7:25710017..25710036 61.05 55
upstream ENSMUSE00000316630 Chr7:25710271..25710338 CAGCTCTGAGAATGGCACTG Chr7:25710292..25710311 59.73 55

*** Putative Vector Insertion (Chr 7: 25710339 - 25710419) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000316622 Chr7:25710420..25710506 CAGAAGGGCAGGAGGTCATT Chr7:25710462..25710481 61.55 55
downstream ENSMUSE00000316615 Chr7:25710803..25710966 AGTTGTCTGATGGCCACCTC Chr7:25710965..25710984 60.12 55
downstream ENSMUSE00000354389 Chr7:25711043..25711142 GGGGTCTTAGGCGACAAAAT Chr7:25711079..25711098 60.32 50
downstream ENSMUSE00000676689 Chr7:25711043..25711142 GGGGTCTTAGGCGACAAAAT Chr7:25711079..25711098 60.32 50
downstream ENSMUSE00000676687 Chr7:25711259..25711604 GTTCAGCCAATCTCCCTCTG Chr7:25711376..25711395 59.8 55
downstream ENSMUSE00000676692 Chr7:25711259..25711604 GTTCAGCCAATCTCCCTCTG Chr7:25711376..25711395 59.8 55
downstream ENSMUSE00000720406 Chr7:25711259..25711611 GTTCAGCCAATCTCCCTCTG Chr7:25711376..25711395 59.8 55
downstream ENSMUSE00000676694 Chr7:25711329..25711371 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ACAGGATAATCGCCTTGCAG Chr7:25710384..25710404 60.24 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CAGCTCTGAGAATGGCACTG Chr7:25710293..25710313 59.73 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000040940