Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI13464
Trapped Gene
Jam2 (ENSMUSG00000053062)
Vector Insertion
Chr 16: 84811242 - 84813143
Public Clones CMHD-GT_272E5-3 (cmhd) CMHD-GT_247B5-3 (cmhd) CMHD-GT_247B10-3 (cmhd) CMHD-GT_246B2-3 (cmhd)
CMHD-GT_247G03-3 (cmhd) CMHD-GT_247B6-3 (cmhd)
Private Clones not available
Severity of mutation (?) Insertion after 43% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000634408 (Chr16:84809589..84811241 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GACTTCCATTCGCATTCCAT Chr16:84810136..84810155 59.9 45 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000634408 (Chr16:84809589..84811241 +)
Downstram Exon
ENSMUSE00000131665 (Chr16:84813144..84813343 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GACTTCCATTCGCATTCCAT Chr16:84810136..84810155 59.9 45 CCTTCTTTATCCTGGCATCG Chr16:84813231..84813250 59.66 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000698472 Chr16:84774368..84774798 GTCCTAGGGCCAGAAGACCT Chr16:84774523..84774542 59.7 60
upstream ENSMUSE00000465097 Chr16:84774528..84774798 GACTGACATCGGGACAGGAC Chr16:84774582..84774601 60.54 60
upstream ENSMUSE00000698466 Chr16:84774631..84774798 GATGCTGCTGCTGCTACACT Chr16:84774758..84774777 59.37 55
upstream ENSMUSE00000268247 Chr16:84801815..84801883 CATCAAAAGACCACCGTCAA Chr16:84801839..84801858 59.54 45
upstream ENSMUSE00000268240 Chr16:84807080..84807187 TGGCTTGTAAAACCCCAAAG Chr16:84807089..84807108 59.97 45
upstream ENSMUSE00000496500 Chr16:84809589..84809741 GCTGGAGAGTATCGCTGTGA Chr16:84809657..84809676 59.14 55
upstream ENSMUSE00000634408 Chr16:84809589..84811241 GACTTCCATTCGCATTCCAT Chr16:84810136..84810155 59.9 45

*** Putative Vector Insertion (Chr 16: 84811242 - 84813143) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000131665 Chr16:84813144..84813343 CCTTCTTTATCCTGGCATCG Chr16:84813231..84813250 59.66 50
downstream ENSMUSE00000131671 Chr16:84815414..84815513 CTCCACTGTCCATCTTGGAA Chr16:84815450..84815469 58.64 50
downstream ENSMUSE00000131673 Chr16:84816511..84816618 ACCACCACAACCGTTGCTAT Chr16:84816556..84816575 60.3 50
downstream ENSMUSE00000698469 Chr16:84819005..84819020 No primer for this exon
downstream ENSMUSE00000131670 Chr16:84821505..84821547 No primer for this exon
downstream ENSMUSE00000404528 Chr16:84823032..84823128 TTTGGTGCAGCTCAAAACTG Chr16:84823095..84823114 60.03 45
downstream ENSMUSE00000698468 Chr16:84823032..84826173 TTTGGTGCAGCTCAAAACTG Chr16:84823095..84823114 60.03 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAATCGCCTTGCAGCACATC Chr16:84811293..84811313 62.25 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector

Come back to gene ENSMUSG00000053062