Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI34554
Trapped Gene
A230083H22Rik (ENSMUSG00000039126)
Vector Insertion
Chr 19: 17200194 - 17211253
Public Clones IST12508H10 (tigm) IST15006E9 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000620829 (Chr19:17199428..17200193 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
AAAACCCTGCACAAGACCAG Chr19:17199791..17199810 60.15 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000620829 (Chr19:17199428..17200193 +)
Downstram Exon
ENSMUSE00000642599 (Chr19:17211254..17211381 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
AAAACCCTGCACAAGACCAG Chr19:17199791..17199810 60.15 50 TCAGCATCTCCCTTCTGGAG Chr19:17211322..17211341 60.49 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000490413 Chr19:17197459..17199082 CAGCGAACCCCAACATAACT Chr19:17197692..17197711 59.99 50
upstream ENSMUSE00000620829 Chr19:17199428..17200193 AAAACCCTGCACAAGACCAG Chr19:17199791..17199810 60.15 50

*** Putative Vector Insertion (Chr 19: 17200194 - 17211253) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000642599 Chr19:17211254..17211381 TCAGCATCTCCCTTCTGGAG Chr19:17211322..17211341 60.49 55
downstream ENSMUSE00000620828 Chr19:17242753..17242832 ACTCCCTCCTCGAAGTGGAT Chr19:17242803..17242822 60.07 55
downstream ENSMUSE00000642598 Chr19:17242753..17242832 ACTCCCTCCTCGAAGTGGAT Chr19:17242803..17242822 60.07 55
downstream ENSMUSE00000230568 Chr19:17253280..17253480 TGACTGCCATTGAGATCCAG Chr19:17253316..17253335 59.79 50
downstream ENSMUSE00000230548 Chr19:17267746..17267919 TTCATGTCAATCCGTTGCTC Chr19:17267884..17267903 59.65 45
downstream ENSMUSE00000693441 Chr19:17270413..17270421 No primer for this exon
downstream ENSMUSE00000230524 Chr19:17273603..17273705 CATTCAGACCGTCCCCATAG Chr19:17273629..17273648 60.33 55
downstream ENSMUSE00000230419 Chr19:17274271..17274402 TTGGGGTTGCACCATTTAAG Chr19:17274347..17274366 60.72 45
downstream ENSMUSE00000230392 Chr19:17276132..17276218 AAAGGCCGAGTCACTGCTAA Chr19:17276215..17276234 60.01 50
downstream ENSMUSE00000400538 Chr19:17282721..17282819 GCTCTCTGGAATGTGGATGC Chr19:17282814..17282833 60.78 55
downstream ENSMUSE00000620827 Chr19:17286168..17286203 No primer for this exon
downstream ENSMUSE00000360440 Chr19:17286782..17286820 ATGCCTCCCTCAGTTCTTCA Chr19:17286810..17286829 59.8 50
downstream ENSMUSE00000346771 Chr19:17290816..17290863 No primer for this exon
downstream ENSMUSE00000409716 Chr19:17295274..17296299 GGTAGGTACGTCCCAGCAAA Chr19:17295366..17295385 59.99 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAATGGTAATCGCCTTGCAG Chr19:17209239..17209259 58.79 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CTTTTCATCGGCACCACATT Chr19:17203169..17203189 60.89 45 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000039126