Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI28303
Trapped Gene
Arhgef12 (ENSMUSG00000059495)
Vector Insertion
Chr 9: 42777276 - 42777795
Public Clones not available
Private Clones OST34473 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000536083 (Chr9:42777796..42777865 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000536083 (Chr9:42777796..42777865 -)
Downstram Exon
ENSMUSE00000513860 (Chr9:42776453..42777275 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon GATCCCTCTGTCGCACTCTC Chr9:42777134..42777153 59.95 60

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000637640 Chr9:42913262..42913569 GGGGTGTGGAGGTGTTACTG Chr9:42913340..42913359 60.28 60
upstream ENSMUSE00000394931 Chr9:42852347..42852370 No primer for this exon
upstream ENSMUSE00000215815 Chr9:42850674..42850759 TGAACCGAGAGTCACCAACA Chr9:42850726..42850745 60.28 50
upstream ENSMUSE00000215816 Chr9:42848623..42848679 No primer for this exon
upstream ENSMUSE00000215813 Chr9:42835280..42835378 GTGGAGACAATCCGGTCTTC Chr9:42835299..42835318 59.51 55
upstream ENSMUSE00000516036 Chr9:42834263..42834312 CATGCGTGCTGGAGTACAAA Chr9:42834283..42834302 60.87 50
upstream ENSMUSE00000515168 Chr9:42830898..42830955 CAAATCATCTGGAGGTGGTG Chr9:42830911..42830930 58.93 50
upstream ENSMUSE00000514142 Chr9:42828688..42828866 CCCATTATGACATCCCCTCA Chr9:42828743..42828762 60.54 50
upstream ENSMUSE00000474054 Chr9:42826418..42826495 CAATGTGGTCCATAACCAGAAA Chr9:42826466..42826487 59.72 40.91
upstream ENSMUSE00000473155 Chr9:42826135..42826254 CCCAAAGATTGCTCAAGGAG Chr9:42826204..42826223 59.81 50
upstream ENSMUSE00000472009 Chr9:42823986..42824126 CTTCTCGGCCCAGTAGTGAC Chr9:42823995..42824014 59.87 60
upstream ENSMUSE00000471036 Chr9:42818262..42818336 GAAGCCCCAGAGAGAAGTGA Chr9:42818278..42818297 59.53 55
upstream ENSMUSE00000637583 Chr9:42816099..42816194 CCTCACATCATTGGAGCAGA Chr9:42816130..42816149 59.79 50
upstream ENSMUSE00000637556 Chr9:42813919..42814029 CCAGAGCATTGAATTGCTGA Chr9:42813987..42814006 59.95 45
upstream ENSMUSE00000584655 Chr9:42813627..42813725 GGCGTGTCTTCCTGGAGTTT Chr9:42813654..42813673 61.59 55
upstream ENSMUSE00000584654 Chr9:42809941..42809983 CCTGAAGGTTCCAGTTCCTG Chr9:42809962..42809981 59.69 55
upstream ENSMUSE00000474728 Chr9:42809529..42809634 TGCATCGCCTCTACATTCAG Chr9:42809582..42809601 59.97 50
upstream ENSMUSE00000637578 Chr9:42809052..42809189 GACCTTGGCTGAGAGTGAGC Chr9:42809149..42809168 60.14 60
upstream ENSMUSE00000637576 Chr9:42808440..42808472 No primer for this exon
upstream ENSMUSE00000637573 Chr9:42808031..42808145 GAACCTCGAAACTTGGAGCA Chr9:42808068..42808087 60.38 50
upstream ENSMUSE00000637555 Chr9:42807149..42807254 AAGGGAAGCGAAGAGGATTC Chr9:42807201..42807220 59.79 50
upstream ENSMUSE00000584640 Chr9:42805657..42805869 CCGAAGCACTTATCCACTCC Chr9:42805815..42805834 59.69 55
upstream ENSMUSE00000536102 Chr9:42801072..42801204 GAGACTGCTTGGACAGCACA Chr9:42801152..42801171 60.19 55
upstream ENSMUSE00000536101 Chr9:42800619..42800654 AGAACATGGGACCCCAAAAC Chr9:42800629..42800648 60.98 50
upstream ENSMUSE00000536098 Chr9:42799957..42800111 ATCGCCTTTGGAGAAAGTCA Chr9:42800082..42800101 59.81 45
upstream ENSMUSE00000637570 Chr9:42798058..42798204 TCAGCGAGTGTCCAGAGAAG Chr9:42798124..42798143 59.28 55
upstream ENSMUSE00000637554 Chr9:42797043..42797128 GCTGTCCGAAAAAGGAATGA Chr9:42797086..42797105 60.19 45
upstream ENSMUSE00000637553 Chr9:42794545..42794670 CAAGTCTCGCCAGAAAAAGG Chr9:42794571..42794590 59.99 50
upstream ENSMUSE00000637567 Chr9:42792457..42792571 GCTGAGAGTAACCCCCTGTG Chr9:42792549..42792568 59.72 60
upstream ENSMUSE00000637566 Chr9:42790031..42790131 CCTCCAGAAAGGGAAAAGGT Chr9:42790107..42790126 59.55 50
upstream ENSMUSE00000637565 Chr9:42787479..42787556 ACTATCAGCGTCGCCTTGAC Chr9:42787527..42787546 60.43 55
upstream ENSMUSE00000637564 Chr9:42786289..42786364 CGTTGGTCTGGAAGGTGAATA Chr9:42786304..42786324 59.98 47.62
upstream ENSMUSE00000637563 Chr9:42785719..42785886 TGCTGGAAGACATCCTTGTG Chr9:42785852..42785871 59.83 50
upstream ENSMUSE00000637562 Chr9:42784116..42784203 TTGGTAGCACAGACGGTTTCT Chr9:42784127..42784147 59.79 47.62
upstream ENSMUSE00000637561 Chr9:42783311..42783397 GCAAGACCTCATCTGTCGAA Chr9:42783375..42783394 58.96 50
upstream ENSMUSE00000584636 Chr9:42783116..42783195 AGTCGCTGGTCTGCAAAGTC Chr9:42783119..42783138 60.6 55
upstream ENSMUSE00000584635 Chr9:42782640..42782873 ATCAGCGGCAGAACATCTCT Chr9:42782781..42782800 59.98 50
upstream ENSMUSE00000584634 Chr9:42780078..42780548 AAGGGGGTCTGGATGAGAGT Chr9:42780184..42780203 59.93 55
upstream ENSMUSE00000584633 Chr9:42779076..42779389 TGGCGAGCTATGGAGGATAC Chr9:42779170..42779189 60.2 55
upstream ENSMUSE00000536083 Chr9:42777796..42777865 No primer for this exon

*** Putative Vector Insertion (Chr 9: 42777276 - 42777795) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000513860 Chr9:42776453..42777275 GATCCCTCTGTCGCACTCTC Chr9:42777134..42777153 59.95 60
downstream ENSMUSE00000512031 Chr9:42771926..42776264 AGTGTAAGAGGCTGCCTGGA Chr9:42775336..42775355 60.01 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCCGACAAGCTCTCAGGTAT Chr9:42777790..42777810 59.31 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCCGACAAGCTCTCAGGTAT Chr9:42777790..42777810 59.31 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000059495