Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI15201
Trapped Gene
Raet1c (ENSMUSG00000053219)
Vector Insertion
Chr 10: 21903721 - 22093582
Public Clones PST9934-NL (escells)
Private Clones not available
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000436481 (Chr10:21903361..21903720 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CATGGCCAGTTATCACATCG Chr10:21903615..21903634 59.95 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000436481 (Chr10:21903361..21903720 +)
Downstram Exon
ENSMUSE00000615535 (Chr10:22093583..22093945 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CATGGCCAGTTATCACATCG Chr10:21903615..21903634 59.95 50 TGGACGTCCTCCATCATACA Chr10:22093889..22093908 59.92 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000666560 Chr10:21878375..21878524 GGCCGCTGTAGTCAGTTACC Chr10:21878429..21878448 59.76 60
upstream ENSMUSE00000666559 Chr10:21891810..21891907 GACCAAATGGCACATAAGCA Chr10:21891834..21891853 59.55 45
upstream ENSMUSE00000666558 Chr10:21892987..21893056 GCAGCAGTCACAGAAGGTTG Chr10:21893026..21893045 59.62 55
upstream ENSMUSE00000644608 Chr10:21893327..21893342 No primer for this exon
upstream ENSMUSE00000615544 Chr10:21893682..21893772 GCTGCAGTTCAAGACACCAA Chr10:21893691..21893710 60.03 50
upstream ENSMUSE00000436736 Chr10:21893725..21893772 No primer for this exon
upstream ENSMUSE00000644606 Chr10:21894099..21894216 ACCAAGCGCCATCATTTTAT Chr10:21894144..21894163 59.44 40
upstream ENSMUSE00000436717 Chr10:21900424..21900678 GACGTGAAGTGCTCAGTGGA Chr10:21900489..21900508 60.03 55
upstream ENSMUSE00000644602 Chr10:21900931..21901194 TTCATACCCCAATGCAGACA Chr10:21901134..21901153 59.92 45
upstream ENSMUSE00000644600 Chr10:21901752..21901921 TACATCAACTTCCCCGCTTC Chr10:21901786..21901805 60.07 50
upstream ENSMUSE00000436481 Chr10:21903361..21903720 CATGGCCAGTTATCACATCG Chr10:21903615..21903634 59.95 50
upstream ENSMUSE00000615542 Chr10:21903361..21903584 ATTAAACCCAGGGCAAGTCC Chr10:21903526..21903545 60.19 50

*** Putative Vector Insertion (Chr 10: 21903721 - 22093582) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000615535 Chr10:22093583..22093945 TGGACGTCCTCCATCATACA Chr10:22093889..22093908 59.92 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GCACCAGTGAATCTTCACCAA Chr10:22065702..22065723 61.09 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GCACCAGTGAATCTTCACCAA Chr10:22065702..22065723 61.09 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000053219