Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI38508
Trapped Gene
1700007B14Rik (ENSMUSG00000031620)
Vector Insertion
Chr 8: 78078824 - 78099771
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 2% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000708783 (Chr8:78078742..78078823 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGGCACCTGCAGAAGCTATAC Chr8:78078791..78078811 60.42 52.38 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000708783 (Chr8:78078742..78078823 +)
Downstram Exon
ENSMUSE00000380983 (Chr8:78099772..78099854 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGGCACCTGCAGAAGCTATAC Chr8:78078791..78078811 60.42 52.38 TGGGTGGTTTCCAATACAGG Chr8:78099796..78099815 60.6 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000682106 Chr8:77972690..77972905 CCTGGTAGGGCAACTGTGAT Chr8:77972767..77972786 59.99 55
upstream ENSMUSE00000713591 Chr8:77972882..77972905 No primer for this exon
upstream ENSMUSE00000715260 Chr8:77986508..77986625 ATAGGCGCAGAAAGAGCTTG Chr8:77986560..77986579 59.75 50
upstream ENSMUSE00000710302 Chr8:77989764..77989789 CCCTGACTCTTACCATCACCTC Chr8:77989764..77989785 59.99 54.54
upstream ENSMUSE00000682105 Chr8:78078742..78078823 TGGCACCTGCAGAAGCTATAC Chr8:78078791..78078811 60.42 52.38
upstream ENSMUSE00000708783 Chr8:78078742..78078823 TGGCACCTGCAGAAGCTATAC Chr8:78078791..78078811 60.42 52.38

*** Putative Vector Insertion (Chr 8: 78078824 - 78099771) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000380983 Chr8:78099772..78099854 TGGGTGGTTTCCAATACAGG Chr8:78099796..78099815 60.6 50
downstream ENSMUSE00000250852 Chr8:78101629..78101893 CAGGGTGGCACTTCTCTTTT Chr8:78101878..78101897 59.33 50
downstream ENSMUSE00000391111 Chr8:78148920..78149010 CCATTTGCTTACTCACGGATT Chr8:78148978..78148998 59.1 42.86
downstream ENSMUSE00000211189 Chr8:78153613..78153692 GAGGCCAGATTATGCAAAGG Chr8:78153669..78153688 59.67 50
downstream ENSMUSE00000211193 Chr8:78193283..78193398 AGCGCTCCTCCAATCATAAA Chr8:78193317..78193336 59.81 45
downstream ENSMUSE00000211192 Chr8:78238669..78238727 No primer for this exon
downstream ENSMUSE00000211190 Chr8:78270162..78270357 GGTCTTGTTTCTTCGCTGGA Chr8:78270264..78270283 60.38 50
downstream ENSMUSE00000211187 Chr8:78277239..78277383 ATTTGGCCCATGATACGAAA Chr8:78277262..78277281 60.15 40
downstream ENSMUSE00000211191 Chr8:78286874..78287008 ACTCATCGATCTGGGTCTGG Chr8:78286990..78287009 60.07 55
downstream ENSMUSE00000250815 Chr8:78412396..78412557 TGTTCACTCTGGCACCTTGA Chr8:78412491..78412510 60.44 50
downstream ENSMUSE00000357281 Chr8:78508091..78508377 TATGGATCGAGCCACCAACT Chr8:78508161..78508180 60.48 50
downstream ENSMUSE00000711509 Chr8:78508091..78508402 TATGGATCGAGCCACCAACT Chr8:78508161..78508180 60.48 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATAATCGCCTTGCAGCACAT Chr8:78096874..78096894 60.64 45 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ACATGCCTTTCATGGAAATCT Chr8:78096829..78096850 58.52 38.1 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000031620