Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI20988
Trapped Gene
AL450317.13 (ENSMUSG00000032534)
Vector Insertion
Chr 9: 102489343 - 102491037
Public Clones not available
Private Clones OST346525 (lexicon) OST82794 (lexicon)
Severity of mutation (?) Insertion after 83% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000583457 (Chr9:102491038..102491317 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GACGGAATAAAGACCGAGCA Chr9:102491273..102491292 60.21 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000583457 (Chr9:102491038..102491317 -)
Downstram Exon
ENSMUSE00000220521 (Chr9:102488908..102489342 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GACGGAATAAAGACCGAGCA Chr9:102491273..102491292 60.21 50 GCGAGCATTGCTTCATTACA Chr9:102489104..102489123 59.98 45

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000709996 Chr9:102528234..102528454 CCTCCTCCCTATGGGACTCT Chr9:102528249..102528268 59.51 60
upstream ENSMUSE00000721515 Chr9:102528234..102528454 CCTCCTCCCTATGGGACTCT Chr9:102528249..102528268 59.51 60
upstream ENSMUSE00000693354 Chr9:102525886..102525923 CAATGAATTGGTGGCCTAGC Chr9:102525897..102525916 60.47 50
upstream ENSMUSE00000693373 Chr9:102525886..102525923 CAATGAATTGGTGGCCTAGC Chr9:102525897..102525916 60.47 50
upstream ENSMUSE00000693353 Chr9:102524026..102524058 AAAAGCCGAAGTTCGAGGAC Chr9:102524035..102524054 60.74 50
upstream ENSMUSE00000693372 Chr9:102524026..102524058 AAAAGCCGAAGTTCGAGGAC Chr9:102524035..102524054 60.74 50
upstream ENSMUSE00000693351 Chr9:102522022..102522090 GATGGAGGCTTTGTTGGAAG Chr9:102522047..102522066 59.67 50
upstream ENSMUSE00000693370 Chr9:102522022..102522090 GATGGAGGCTTTGTTGGAAG Chr9:102522047..102522066 59.67 50
upstream ENSMUSE00000583465 Chr9:102521141..102521318 TCTGGAGACTTGCTTGGACA Chr9:102521197..102521216 59.54 50
upstream ENSMUSE00000693350 Chr9:102521141..102521318 TCTGGAGACTTGCTTGGACA Chr9:102521197..102521216 59.54 50
upstream ENSMUSE00000583464 Chr9:102517605..102517700 GCCATGGAGTACAAGGAGGA Chr9:102517627..102517646 60.07 55
upstream ENSMUSE00000693348 Chr9:102517605..102517700 GCCATGGAGTACAAGGAGGA Chr9:102517627..102517646 60.07 55
upstream ENSMUSE00000583463 Chr9:102515625..102515747 TTTTCGAGAGGATCGGTCTG Chr9:102515654..102515673 60.33 50
upstream ENSMUSE00000693347 Chr9:102515625..102515747 TTTTCGAGAGGATCGGTCTG Chr9:102515654..102515673 60.33 50
upstream ENSMUSE00000583462 Chr9:102509656..102509769 CTGGCTGAACAGTCGGAGAT Chr9:102509663..102509682 60.41 55
upstream ENSMUSE00000634753 Chr9:102509656..102509769 CTGGCTGAACAGTCGGAGAT Chr9:102509663..102509682 60.41 55
upstream ENSMUSE00000220527 Chr9:102505172..102505405 GTCAACGACCTGATGGGAAC Chr9:102505242..102505261 60.37 55
upstream ENSMUSE00000583461 Chr9:102505172..102505405 GTCAACGACCTGATGGGAAC Chr9:102505242..102505261 60.37 55
upstream ENSMUSE00000220534 Chr9:102504748..102504878 CCTTCATCCTTGAGGCAAAA Chr9:102504807..102504826 60.18 45
upstream ENSMUSE00000220540 Chr9:102503647..102503784 TTCAGCCACAGCAGTGAAGA Chr9:102503683..102503702 60.74 50
upstream ENSMUSE00000220525 Chr9:102500499..102500613 TCTGTGAGTGCAACATGCAA Chr9:102500587..102500606 60.03 45
upstream ENSMUSE00000220538 Chr9:102498452..102498649 TACAGTTCTGCCCTGGAAGG Chr9:102498597..102498616 60.25 55
upstream ENSMUSE00000220523 Chr9:102496838..102496924 No primer for this exon
upstream ENSMUSE00000583458 Chr9:102492658..102492863 TGAGCACCAAATCTGAGCTG Chr9:102492750..102492769 60.14 50
upstream ENSMUSE00000583457 Chr9:102491038..102491317 GACGGAATAAAGACCGAGCA Chr9:102491273..102491292 60.21 50

*** Putative Vector Insertion (Chr 9: 102489343 - 102491037) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000220521 Chr9:102488908..102489342 GCGAGCATTGCTTCATTACA Chr9:102489104..102489123 59.98 45

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TTCGGTATGAAAACTTTCTCGTG Chr9:102491017..102491040 60.51 39.13 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TTCGGTATGAAAACTTTCTCGTG Chr9:102491017..102491040 60.51 39.13 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000032534