Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI19739
Trapped Gene
Kank2 (ENSMUSG00000032194)
Vector Insertion
Chr 9: 21573449 - 21574197
Public Clones (ggtc) (cmhd) IST13519B4 (tigm) IST12231F3 (tigm) IST12704D5 (tigm)
IST14398H10 (tigm) IST11439A8 (tigm)
Private Clones OST382347 (lexicon) OST378963 (lexicon) OST232175 (lexicon) OST21158 (lexicon)
OST6215 (lexicon)
Severity of mutation (?) Insertion after 98% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000356457 (Chr9:21574198..21574287 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
ACGCATGAACATCAAGTGCT Chr9:21574200..21574219 59.32 45 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000356457 (Chr9:21574198..21574287 -)
Downstram Exon
ENSMUSE00000584853 (Chr9:21571233..21573448 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
ACGCATGAACATCAAGTGCT Chr9:21574200..21574219 59.32 45 AGAGACTGGTGGGTGTTTGG Chr9:21571352..21571371 60 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000389762 Chr9:21602926..21602979 No primer for this exon
upstream ENSMUSE00000702625 Chr9:21600524..21600638 GCTGTTGGGGAGACTCAGTT Chr9:21600598..21600617 59.31 55
upstream ENSMUSE00000393980 Chr9:21598901..21600127 GTCTGGAACCCTACGGAACA Chr9:21599073..21599092 59.97 55
upstream ENSMUSE00000217598 Chr9:21585004..21585147 GCCTTCCTCCGTTAATCCAC Chr9:21585127..21585146 60.83 55
upstream ENSMUSE00000217595 Chr9:21584823..21584913 CCCTGAAGTCAACCAGAGGA Chr9:21584851..21584870 60.23 55
upstream ENSMUSE00000217601 Chr9:21584145..21584381 CACGAGAGCACAGAGAACGA Chr9:21584316..21584335 60.33 55
upstream ENSMUSE00000217592 Chr9:21580145..21580232 CCTCATATCAGCCTGCTTGG Chr9:21580195..21580214 60.76 55
upstream ENSMUSE00000411828 Chr9:21578977..21579196 CGGCGACATCTAGTCACCTT Chr9:21579102..21579121 60.28 55
upstream ENSMUSE00000702616 Chr9:21578977..21579196 CGGCGACATCTAGTCACCTT Chr9:21579102..21579121 60.28 55
upstream ENSMUSE00000376094 Chr9:21577189..21577331 AGACCCAGGACGACATTGAG Chr9:21577240..21577259 60.11 55
upstream ENSMUSE00000702615 Chr9:21577189..21577331 AGACCCAGGACGACATTGAG Chr9:21577240..21577259 60.11 55
upstream ENSMUSE00000337246 Chr9:21574370..21574570 GAGCACGGACACAAGGAGAT Chr9:21574422..21574441 60.27 55
upstream ENSMUSE00000702614 Chr9:21574370..21574570 GAGCACGGACACAAGGAGAT Chr9:21574422..21574441 60.27 55
upstream ENSMUSE00000356457 Chr9:21574198..21574287 ACGCATGAACATCAAGTGCT Chr9:21574200..21574219 59.32 45
upstream ENSMUSE00000702613 Chr9:21574198..21574287 ACGCATGAACATCAAGTGCT Chr9:21574200..21574219 59.32 45

*** Putative Vector Insertion (Chr 9: 21573449 - 21574197) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000394948 Chr9:21571233..21573448 AGAGACTGGTGGGTGTTTGG Chr9:21571352..21571371 60 55
downstream ENSMUSE00000584853 Chr9:21571233..21573448 AGAGACTGGTGGGTGTTTGG Chr9:21571352..21571371 60 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATCAAGTGCTCGGTGAGTCC Chr9:21574188..21574208 60.27 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 ATCAAGTGCTCGGTGAGTCC Chr9:21574188..21574208 60.27 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AGCTGTCCGTGCTTTACAGG Chr9:21571285..21571305 60.45 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 AGCTGTCCGTGCTTTACAGG Chr9:21571285..21571305 60.45 55 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032194