Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI12755
Trapped Gene
Arih2 (ENSMUSG00000064145)
Vector Insertion
Chr 9: 108547326 - 108551559
Public Clones D102D06 (ggtc) 5SE314D09 (ggtc) D056D12 (ggtc) P015D11 (ggtc) 3SE314D09 (ggtc)
D056D12 (ggtc) PST17506-NR (escells) IST13663D11 (tigm) IST10761G1 (tigm)
IST13630F2 (tigm)
Private Clones OST463316 (lexicon) OST257136 (lexicon) OST231571 (lexicon) OST210075 (lexicon)
OST139070 (lexicon) OST137727 (lexicon) OST137725 (lexicon) OST119111 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000516014 (Chr9:108551560..108551711 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GTCAGCCTGGTTTGGTCTGG Chr9:108551613..108551632 63.01 60 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000516014 (Chr9:108551560..108551711 -)
Downstram Exon
ENSMUSE00000512727 (Chr9:108547264..108547325 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GTCAGCCTGGTTTGGTCTGG Chr9:108551613..108551632 63.01 60 TCCTGCAGATATCACCCAAA Chr9:108547262..108547281 59.08 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000516014 Chr9:108551560..108551711 GTCAGCCTGGTTTGGTCTGG Chr9:108551613..108551632 63.01 60

*** Putative Vector Insertion (Chr 9: 108547326 - 108551559) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000512727 Chr9:108547264..108547325 TCCTGCAGATATCACCCAAA Chr9:108547262..108547281 59.08 45
downstream ENSMUSE00000221357 Chr9:108546357..108546699 CCAGCAAAGTTGCAGAAACA Chr9:108546595..108546614 60.03 45
downstream ENSMUSE00000221350 Chr9:108522390..108522457 CTCTGAGACTTGCCAGTGGA Chr9:108522379..108522398 59.12 55
downstream ENSMUSE00000221358 Chr9:108519703..108519766 GAACTCGAGCCTCAACAAGC Chr9:108519701..108519720 60.14 55
downstream ENSMUSE00000221365 Chr9:108519009..108519159 GTAGGTTTTCCTTCCGCACA Chr9:108519071..108519090 60.11 50
downstream ENSMUSE00000221361 Chr9:108517356..108517477 TCTGGTGTTCGAAGTGGACA Chr9:108517413..108517432 60.28 50
downstream ENSMUSE00000221353 Chr9:108516057..108516166 CTCCTGTACCCGGATAACCA Chr9:108516082..108516101 59.81 55
downstream ENSMUSE00000221363 Chr9:108513964..108514081 AGTCGTCTGCACACTTGGTG Chr9:108513980..108513999 59.94 55
downstream ENSMUSE00000221364 Chr9:108512228..108512278 CTTCTCGATGCAGATGTTGC Chr9:108512227..108512246 59.55 50
downstream ENSMUSE00000221351 Chr9:108512109..108512130 No primer for this exon
downstream ENSMUSE00000221352 Chr9:108510933..108511084 TCACTACCATGCGTCTTCCA Chr9:108511017..108511036 60.26 50
downstream ENSMUSE00000221355 Chr9:108510240..108510383 CAATCCAAGTTCCCAGGTTG Chr9:108510259..108510278 60.35 50
downstream ENSMUSE00000221362 Chr9:108509619..108509687 GGGACCGGATTCCATGTAGTA Chr9:108509609..108509629 60.94 52.38
downstream ENSMUSE00000511248 Chr9:108507665..108507748 TGTCTGCACGCTCAACTTTC Chr9:108507657..108507676 60.18 50
downstream ENSMUSE00000370226 Chr9:108505278..108507484 CCACAGCCCAGTTTAGGTGT Chr9:108507379..108507398 60.03 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TAGTAATCGCCTTGCAGCAC Chr9:108548491..108548511 59.09 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GGCCTTGTTTACTCTTGACTGG Chr9:108551514..108551536 60.17 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CTAATCGCCTTGCAGCACATC Chr9:108551641..108551662 63.08 52.38 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 GTCCCGTGACTGGGAAAACC Chr9:108551645..108551665 63.92 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000064145