Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2107
Trapped Gene
Cwf19l2 (ENSMUSG00000025898)
Vector Insertion
Chr 9: 3418776 - 3421285
Public Clones AK0514 (sanger) AK0510 (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 21% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000540177 (Chr9:3418656..3418775 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
CAAATAGAGCGGGAGAAAACC Chr9:3418740..3418760 60.08 47.62 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000540177 (Chr9:3418656..3418775 +)
Downstram Exon
ENSMUSE00000441251 (Chr9:3421286..3421376 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
CAAATAGAGCGGGAGAAAACC Chr9:3418740..3418760 60.08 47.62 CAGGTTTTTGATGGGAGACC Chr9:3421359..3421378 59.38 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000153958 Chr9:3404085..3404190 GCGAAAAGAACAGACCCGTA Chr9:3404145..3404164 60.25 50
upstream ENSMUSE00000153955 Chr9:3409966..3410076 GTAAGCGACTTCGGGATGAG Chr9:3410006..3410025 59.84 55
upstream ENSMUSE00000441274 Chr9:3411329..3411451 GAAAAAGGACAAGCATTCAAAAA Chr9:3411352..3411374 59.65 30.43
upstream ENSMUSE00000540178 Chr9:3417869..3417982 GAAGAATGTGACAGCCACGA Chr9:3417956..3417975 59.84 50
upstream ENSMUSE00000540177 Chr9:3418656..3418775 CAAATAGAGCGGGAGAAAACC Chr9:3418740..3418760 60.08 47.62

*** Putative Vector Insertion (Chr 9: 3418776 - 3421285) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000441251 Chr9:3421286..3421376 CAGGTTTTTGATGGGAGACC Chr9:3421359..3421378 59.38 50
downstream ENSMUSE00000370457 Chr9:3428668..3428783 CTTAATCCGCCATCCTCCAC Chr9:3428698..3428717 61.72 55
downstream ENSMUSE00000153948 Chr9:3430438..3431087 GCGTTGTAGCTCCAGGTTTC Chr9:3430982..3431001 59.88 55
downstream ENSMUSE00000153953 Chr9:3441055..3441145 GATAATCTTGGCCCCCAACT Chr9:3441124..3441143 60.15 50
downstream ENSMUSE00000153946 Chr9:3442961..3443047 TCTACGCCCAATCTTTTTGC Chr9:3443049..3443068 60.21 45
downstream ENSMUSE00000153949 Chr9:3447237..3447353 AGGGTTTCTCTAGGGCTGCT Chr9:3447322..3447341 59.48 55
downstream ENSMUSE00000153950 Chr9:3450014..3450151 No primer for this exon
downstream ENSMUSE00000153952 Chr9:3454540..3454752 CAATCGCTCTTCTCCTCTGG Chr9:3454657..3454676 60.09 55
downstream ENSMUSE00000261328 Chr9:3456733..3456849 GTGGCTGCTTGATGATGTTG Chr9:3456818..3456837 60.27 50
downstream ENSMUSE00000261307 Chr9:3458734..3458889 GGAGCCATATCACCCACTTC Chr9:3458879..3458898 59.37 55
downstream ENSMUSE00000261286 Chr9:3460051..3460131 No primer for this exon
downstream ENSMUSE00000261261 Chr9:3475483..3475584 AATGATGTGGGCAAAACCTC Chr9:3475551..3475570 59.8 45
downstream ENSMUSE00000407798 Chr9:3477817..3479236 GTCACCCAAACCATGTTTCC Chr9:3478149..3478168 60.07 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 AAACCGTGACTGGGAAAACC Chr9:3418823..3418843 61.14 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025898