Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI29421
Trapped Gene
Arhgef3 (ENSMUSG00000021895)
Vector Insertion
Chr 14: 28210920 - 28213450
Public Clones CMHD-GT_426C5-3 (cmhd)
Private Clones not available
Severity of mutation (?) Insertion after 66% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000650203 (Chr14:28210749..28210919 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GAATCGGAATGCCGCTATTA Chr14:28210797..28210816 60.03 45 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000650203 (Chr14:28210749..28210919 +)
Downstram Exon
ENSMUSE00000650202 (Chr14:28213451..28213637 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GAATCGGAATGCCGCTATTA Chr14:28210797..28210816 60.03 45 GATGGGCTGTCGGTACAACT Chr14:28213549..28213568 60 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000650210 Chr14:28051225..28051339 ACTTAGCAGCCAGGGAATTG Chr14:28051263..28051282 59.34 50
upstream ENSMUSE00000563302 Chr14:28078709..28078771 GTTCCCAGGATGAAGATGCT Chr14:28078725..28078744 59.09 50
upstream ENSMUSE00000563242 Chr14:28149363..28149455 CTCACTGTCAAGAGGGCAAA Chr14:28149390..28149409 59.01 50
upstream ENSMUSE00000650209 Chr14:28175976..28176083 CACATCGCTAGCAAACCTCA Chr14:28176014..28176033 60.01 50
upstream ENSMUSE00000650208 Chr14:28192777..28192947 GTGTCAATCAGGTGCTCACG Chr14:28192904..28192923 60.32 55
upstream ENSMUSE00000650207 Chr14:28197340..28197402 No primer for this exon
upstream ENSMUSE00000650206 Chr14:28199031..28199127 CCCATGCTGAAACTCTCCAT Chr14:28199043..28199062 60.07 50
upstream ENSMUSE00000650205 Chr14:28199279..28199355 AGCTTCGAGATGTTCGGAAA Chr14:28199291..28199310 59.96 45
upstream ENSMUSE00000650204 Chr14:28207119..28207376 ATCACCCTTCAGTCGCAAAC Chr14:28207235..28207254 60.12 50
upstream ENSMUSE00000650203 Chr14:28210749..28210919 GAATCGGAATGCCGCTATTA Chr14:28210797..28210816 60.03 45

*** Putative Vector Insertion (Chr 14: 28210920 - 28213450) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000650202 Chr14:28213451..28213637 GATGGGCTGTCGGTACAACT Chr14:28213549..28213568 60 55
downstream ENSMUSE00000445957 Chr14:28214816..28217090 CCAGTCCATGCAGAGCAGTA Chr14:28215471..28215490 60.01 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GCTCAAGGGTCCTGTGTTGT Chr14:28210871..28210891 60.16 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCTCAAGGGTCCTGTGTTGT Chr14:28210871..28210891 60.16 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000021895