Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI14358
Trapped Gene
Tnfsf12 (ENSMUSG00000018752)
Vector Insertion
Chr 11: 69498161 - 69498633
Public Clones FHCRC-GT-S17-1H1 (fhcrc) IST14370B8 (tigm) IST14788G2 (tigm)
Private Clones OST48531 (lexicon) OST35738 (lexicon)
Severity of mutation (?) Insertion after 34% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000651690 (Chr11:69498531..69498632 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000651690 (Chr11:69498531..69498632 -)
Downstram Exon
ENSMUSE00000111681 (Chr11:69498162..69498240 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000479377 Chr11:69509098..69509600 No primer for this exon
upstream ENSMUSE00000662017 Chr11:69509098..69509311 No primer for this exon
upstream ENSMUSE00000677497 Chr11:69509098..69509499 No primer for this exon
upstream ENSMUSE00000329192 Chr11:69508896..69508946 No primer for this exon
upstream ENSMUSE00000662016 Chr11:69508896..69508943 No primer for this exon
upstream ENSMUSE00000111687 Chr11:69508252..69508327 No primer for this exon
upstream ENSMUSE00000111686 Chr11:69507123..69507176 No primer for this exon
upstream ENSMUSE00000111689 Chr11:69507008..69507043 No primer for this exon
upstream ENSMUSE00000111691 Chr11:69500754..69500878 No primer for this exon
upstream ENSMUSE00000651691 Chr11:69500459..69500593 No primer for this exon
upstream ENSMUSE00000662015 Chr11:69500342..69500593 No primer for this exon
upstream ENSMUSE00000578728 Chr11:69498531..69498761 No primer for this exon
upstream ENSMUSE00000651690 Chr11:69498531..69498632 No primer for this exon
upstream ENSMUSE00000677468 Chr11:69498531..69499056 No primer for this exon
upstream ENSMUSE00000111681 Chr11:69498162..69498240 No primer for this exon

*** Putative Vector Insertion (Chr 11: 69498161 - 69498633) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000111685 Chr11:69497987..69498034 No primer for this exon
downstream ENSMUSE00000111682 Chr11:69497720..69497838 No primer for this exon
downstream ENSMUSE00000651682 Chr11:69497720..69497835 No primer for this exon
downstream ENSMUSE00000111680 Chr11:69497356..69497494 No primer for this exon
downstream ENSMUSE00000677472 Chr11:69496733..69496846 No primer for this exon
downstream ENSMUSE00000651681 Chr11:69496348..69496846 No primer for this exon
downstream ENSMUSE00000500568 Chr11:69496079..69496846 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGCTGTCGCACTACTGATCC Chr11:69498636..69498656 60.02 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGCTGTCGCACTACTGATCC Chr11:69498636..69498656 60.02 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 GGATGAATGGCAGAGGGTAA Chr11:69498476..69498496 59.89 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GAGTCAGGGGAGATGGGAAT Chr11:69498507..69498527 60.28 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000018752