Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI17296
Trapped Gene
6430526N21Rik (ENSMUSG00000074405)
Vector Insertion
Chr 7: 4983810 - 4984364
Public Clones CMHD-GT_513B11-3 (cmhd) CMHD-GT_457B1-3 (cmhd)
Private Clones OST445761 (lexicon) OST434076 (lexicon) OST323050 (lexicon) OST308011 (lexicon)
OST285864 (lexicon) OST285528 (lexicon) OST235506 (lexicon) OST234361 (lexicon)
OST224604 (lexicon) OST216643 (lexicon) OST207737 (lexicon) OST189197 (lexicon)
OST171176 (lexicon) OST153153 (lexicon) OST145584 (lexicon) OST133655 (lexicon)
OST111868 (lexicon) OST106000 (lexicon) OST90792 (lexicon) OST57213 (lexicon)
OST54170 (lexicon) OST33403 (lexicon) OST9519 (lexicon) OST7907 (lexicon)
Severity of mutation (?) Insertion after 100% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000465026 (Chr7:4980593..4983809 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AACACCAACTGGAGGTACGC Chr7:4981444..4981463 60.03 55 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000465026 (Chr7:4980593..4983809 +)
Downstram Exon
ENSMUSE00000677249 (Chr7:4984365..4984740 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AACACCAACTGGAGGTACGC Chr7:4981444..4981463 60.03 55 TCGGGGTCTCAAATCAGTTC Chr7:4984452..4984471 60.05 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000637483 Chr7:4971978..4972257 GTGTCTAGTGCCGGCGTAAT Chr7:4972034..4972053 60.16 55
upstream ENSMUSE00000677250 Chr7:4972172..4972257 No primer for this exon
upstream ENSMUSE00000465026 Chr7:4980593..4983809 AACACCAACTGGAGGTACGC Chr7:4981444..4981463 60.03 55
upstream ENSMUSE00000538366 Chr7:4980593..4982881 AACACCAACTGGAGGTACGC Chr7:4981444..4981463 60.03 55
upstream ENSMUSE00000677248 Chr7:4981340..4981431 CGCACCTACAACCATGTCTC Chr7:4981382..4981401 59.17 55
upstream ENSMUSE00000677247 Chr7:4981676..4981739 TCAAGAAGCCTAGCCACCTC Chr7:4981695..4981714 59.57 55
upstream ENSMUSE00000677246 Chr7:4982765..4982784 No primer for this exon
upstream ENSMUSE00000677245 Chr7:4982810..4982844 No primer for this exon
upstream ENSMUSE00000637480 Chr7:4983231..4983478 ACTTCGCGCAGTCTTCTAGC Chr7:4983351..4983370 59.93 55

*** Putative Vector Insertion (Chr 7: 4983810 - 4984364) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000637482 Chr7:4984365..4984825 TCGGGGTCTCAAATCAGTTC Chr7:4984452..4984471 60.05 50
downstream ENSMUSE00000677249 Chr7:4984365..4984740 TCGGGGTCTCAAATCAGTTC Chr7:4984452..4984471 60.05 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CCTGACCAGGGTGTTTCAGTA Chr7:4983793..4983814 60.01 52.38 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCTGACCAGGGTGTTTCAGTA Chr7:4983793..4983814 60.01 52.38 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000074405