Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20572
Trapped Gene
Jmy (ENSMUSG00000021690)
Vector Insertion
Chr 13: 94242750 - 94268256
Public Clones not available
Private Clones OST358313 (lexicon)
Severity of mutation (?) Insertion after 34% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000464934 (Chr13:94268257..94269644 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CAGAGACAGAGGAGCGGTTC Chr13:94269089..94269108 60.13 60 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000464934 (Chr13:94268257..94269644 -)
Downstram Exon
ENSMUSE00000120049 (Chr13:94242576..94242749 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CAGAGACAGAGGAGCGGTTC Chr13:94269089..94269108 60.13 60 ATGTCTCGGAATGGCTGAAG Chr13:94242591..94242610 60.22 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000464934 Chr13:94268257..94269644 CAGAGACAGAGGAGCGGTTC Chr13:94269089..94269108 60.13 60

*** Putative Vector Insertion (Chr 13: 94242750 - 94268256) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000120049 Chr13:94242576..94242749 ATGTCTCGGAATGGCTGAAG Chr13:94242591..94242610 60.22 50
downstream ENSMUSE00000470065 Chr13:94234522..94234672 ATTCTTCGAGGGCCCAAATA Chr13:94234613..94234632 60.76 45
downstream ENSMUSE00000120042 Chr13:94229575..94229744 GGAGTTTTTCCATTCGCTCA Chr13:94229639..94229658 60.19 45
downstream ENSMUSE00000120045 Chr13:94223883..94224048 GATTCCAGCTGATCCAATCG Chr13:94223971..94223990 60.57 50
downstream ENSMUSE00000120040 Chr13:94223343..94223530 ACAGACGCTGCCATCTCTTC Chr13:94223427..94223446 60.56 55
downstream ENSMUSE00000569811 Chr13:94222762..94222848 AAACGCTGCTGGAACTTCTC Chr13:94222783..94222802 59.62 50
downstream ENSMUSE00000569810 Chr13:94212541..94212636 GGCTAACCCAGGCACTTTTT Chr13:94212563..94212582 60.48 50
downstream ENSMUSE00000569803 Chr13:94210970..94211576 AACACGGTTTGGGGTCAATA Chr13:94211227..94211246 60.09 45
downstream ENSMUSE00000569802 Chr13:94209394..94209704 AAGCTACCACGCTTCAAGGA Chr13:94209634..94209653 60.01 50
downstream ENSMUSE00000611885 Chr13:94204165..94205374 TAACCTCCCGTTTGTGCTTC Chr13:94205199..94205218 60.11 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AGCAGCGGTCCTAGTTTTCA Chr13:94253219..94253239 60.01 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTGAAACGTGACTGGGAAAA Chr13:94253191..94253211 59.15 40 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000021690