Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI3180
Trapped Gene
Hspbap1 (ENSMUSG00000022849)
Vector Insertion
Chr 16: 35818849 - 35824774
Public Clones AM0711 (sanger) XS0223 (sanger) RRT285 (baygenomics)
Private Clones not available
Severity of mutation (?) Insertion after 57% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000131261 (Chr16:35818765..35818848 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGTGGCATTACGTGGAGTCT Chr16:35818787..35818806 60 55 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000131261 (Chr16:35818765..35818848 +)
Downstram Exon
ENSMUSE00000131271 (Chr16:35824775..35824885 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGTGGCATTACGTGGAGTCT Chr16:35818787..35818806 60 55 No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000394995 Chr16:35770472..35770625 GAGGATCCTTCCTGTGTGGA Chr16:35770482..35770501 60.05 55
upstream ENSMUSE00000516388 Chr16:35787276..35787461 ACTGGACTGCGAAACACCTT Chr16:35787381..35787400 59.77 50
upstream ENSMUSE00000131275 Chr16:35801623..35801804 AAATTCTGGGCTTACGCTGA Chr16:35801736..35801755 59.85 45
upstream ENSMUSE00000131273 Chr16:35814004..35814140 TACACTGTGGATCGGGTCCT Chr16:35814054..35814073 60.39 55
upstream ENSMUSE00000325705 Chr16:35817238..35817409 GAAGTGTTTCCCCCAGTTCC Chr16:35817349..35817368 60.72 55
upstream ENSMUSE00000131261 Chr16:35818765..35818848 GGTGGCATTACGTGGAGTCT Chr16:35818787..35818806 60 55

*** Putative Vector Insertion (Chr 16: 35818849 - 35824774) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000131271 Chr16:35824775..35824885 No primer for this exon
downstream ENSMUSE00000386605 Chr16:35824969..35828532 TTTGGCTACTGAGCGATGTG Chr16:35826611..35826630 60.01 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AATCCCAGTTAATCGCCTTG Chr16:35818891..35818911 59.04 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGATCCTGTCACCGTCAGT Chr16:35818809..35818829 59.1 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000022849