Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI6398
Trapped Gene
Dido1 (ENSMUSG00000038914)
Vector Insertion
Chr 2: 180436806 - 180444614
Public Clones (sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) YHC046 (baygenomics) RRL002 (baygenomics)
D002C02 (ggtc) M119C02 (ggtc) P005A12 (ggtc) W243A04 (ggtc) P150G06 (ggtc)
P121G09 (ggtc) P105A02 (ggtc) H003F11 (ggtc) E068C12 (ggtc) E043H03 (ggtc)
D081C10 (ggtc) D041E11 (ggtc) D018B02 (ggtc) (ggtc) W257A06 (ggtc)
P056E04 (ggtc) P026F08 (ggtc) W233F05 (ggtc) M049F05 (ggtc) P140H10 (ggtc)
P117G10 (ggtc) H011G03 (ggtc) E091D04 (ggtc) E064A04 (ggtc) D159H01 (ggtc)
D045A05 (ggtc) D039E07 (ggtc) D004A07 (ggtc) (ggtc) P147F02 (ggtc)
P117F10 (ggtc) P012D06 (ggtc) W271B05 (ggtc) P125E03 (ggtc) P105C08 (ggtc)
H004B05 (ggtc) E076G03 (ggtc) E045A08 (ggtc) D127G04 (ggtc) D042G06 (ggtc)
D022G03 (ggtc) P144B02 (ggtc) P065C12 (ggtc) P005B12 (ggtc) W274D07 (ggtc)
P144B02 (ggtc) P121G09 (ggtc) P104C11 (ggtc) E121D04 (ggtc) E068C12 (ggtc)
E037C01 (ggtc) D048H10 (ggtc) D039E09 (ggtc) D018B02 (ggtc) (ggtc)
D045A05 (ggtc) P111B12 (ggtc) P081E11 (ggtc) W268A05 (ggtc) W178A03 (ggtc)
P135B12 (ggtc) P117F10 (ggtc) H011G03 (ggtc) E079G12 (ggtc) E047A05 (ggtc)
D144F09 (ggtc) D045A05 (ggtc) D026C06 (ggtc) 5SE386A11 (ggtc) (ggtc)
D048H10 (ggtc) M124E08 (ggtc) P007F10 (ggtc) W238F07 (ggtc) P150G06 (ggtc)
P122B07 (ggtc) P105A02 (ggtc) H004B05 (ggtc) E076D08 (ggtc) E045A08 (ggtc)
D089E02 (ggtc) D041F12 (ggtc) D022F03 (ggtc) (ggtc) P033D10 (ggtc)
P062B03 (ggtc) P015F02 (ggtc) W176B05 (ggtc) P140H10 (ggtc) P121E10 (ggtc)
P104C11 (ggtc) E121D04 (ggtc) E064A04 (ggtc) D183B01 (ggtc) D048H10 (ggtc)
D039E07 (ggtc) D007F12 (ggtc) (ggtc) P147G07 (ggtc) P110G10 (ggtc)
P088H07 (ggtc) W211C03 (ggtc) W175B07 (ggtc) P133G06 (ggtc) P105C08 (ggtc)
H007F06 (ggtc) E079G12 (ggtc) E045A09 (ggtc) D144F09 (ggtc) D042G06 (ggtc)
D026B04 (ggtc) (cmhd) PST11931-NL (escells) PST24935-NR (escells) IST14677F6 (tigm)
IST10439H1 (tigm) IST14184H6 (tigm) IST13570F7 (tigm) IST14980E1 (tigm)
IST10583D6 (tigm) IST11683H5 (tigm) IST15111F1 (tigm) IST11711B5BBF1 (tigm)
IST15053G2 (tigm) IST10583D6 (tigm) IST15111F1 (tigm) IST14649H12 (tigm)
IST14568B10 (tigm) IST12945E8 (tigm) IST14435E4 (tigm)
Private Clones not available
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000462163 (Chr2:180444615..180444704 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
GGGGATGGAGACGTGTAGACT Chr2:180444630..180444650 60.39 57.14 TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000462163 (Chr2:180444615..180444704 -)
Downstram Exon
ENSMUSE00000546158 (Chr2:180436666..180436805 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
GGGGATGGAGACGTGTAGACT Chr2:180444630..180444650 60.39 57.14 CAGCCATTTCCAGAGCTACC Chr2:180436663..180436682 59.84 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000462163 Chr2:180444615..180444704 GGGGATGGAGACGTGTAGACT Chr2:180444630..180444650 60.39 57.14

*** Putative Vector Insertion (Chr 2: 180436806 - 180444614) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000546158 Chr2:180436666..180436805 CAGCCATTTCCAGAGCTACC Chr2:180436663..180436682 59.84 55
downstream ENSMUSE00000170674 Chr2:180426569..180426753 AACCTTTGGCTGGAAATCCT Chr2:180426571..180426590 59.94 45
downstream ENSMUSE00000638595 Chr2:180423529..180424360 GACACCGGCACATTCTTTTT Chr2:180424068..180424087 59.98 45
downstream ENSMUSE00000720765 Chr2:180423529..180424360 GACACCGGCACATTCTTTTT Chr2:180424068..180424087 59.98 45
downstream ENSMUSE00000638594 Chr2:180422181..180422502 TTTGCTGCCTTCTCAATCCT Chr2:180422196..180422215 59.96 45
downstream ENSMUSE00000638593 Chr2:180419669..180419881 TGGCTTCGTCTTGACCTTTT Chr2:180419680..180419699 59.85 45
downstream ENSMUSE00000638592 Chr2:180418514..180418733 TCTCTGGCTTCACAGCATTG Chr2:180418537..180418556 60.14 50
downstream ENSMUSE00000661131 Chr2:180418254..180418733 TCCAACATGAGGCCTACACA Chr2:180418266..180418285 60.11 50
downstream ENSMUSE00000661132 Chr2:180415763..180418733 TGACTACACTCCCGGGTTTC Chr2:180416801..180416820 59.97 55
downstream ENSMUSE00000638591 Chr2:180409673..180410132 TTCTTCGGGATGGTAACTGC Chr2:180410050..180410069 60.07 50
downstream ENSMUSE00000678345 Chr2:180409673..180410660 CCTGGAAATAGCCCGTACAA Chr2:180410179..180410198 59.95 50
downstream ENSMUSE00000638590 Chr2:180409396..180409555 TGATGCTGCGATATTTGCTC Chr2:180409403..180409422 59.94 45
downstream ENSMUSE00000638589 Chr2:180408180..180408296 TTCTCGAAGAACACGATGGA Chr2:180408248..180408267 59.37 45
downstream ENSMUSE00000638588 Chr2:180407936..180408040 CGGTGGAGAATCTTCCATGT Chr2:180407929..180407948 59.93 50
downstream ENSMUSE00000638587 Chr2:180406988..180407123 TGAAGACGTCCAGGAGAGGT Chr2:180407038..180407057 59.83 55
downstream ENSMUSE00000638586 Chr2:180406097..180406619 GTATGGACTTGGGCACCACT Chr2:180406133..180406152 59.85 55
downstream ENSMUSE00000638585 Chr2:180405566..180405719 TTCCAAATCGTGTTGAGTCG Chr2:180405626..180405645 59.69 45
downstream ENSMUSE00000638584 Chr2:180404970..180405059 CGTAATCCCACACGGTCTTT Chr2:180404977..180404996 59.85 50
downstream ENSMUSE00000546157 Chr2:180404096..180404291 CTCAAAGGGCAAGAGTTTGG Chr2:180404081..180404100 59.85 50
downstream ENSMUSE00000661133 Chr2:180404070..180404291 CTCAAAGGGCAAGAGTTTGG Chr2:180404081..180404100 59.85 50
downstream ENSMUSE00000678344 Chr2:180402995..180404291 AGTAGAAGGCACCCCTGGAT Chr2:180403725..180403744 59.96 55
downstream ENSMUSE00000661135 Chr2:180402993..180404291 AGTAGAAGGCACCCCTGGAT Chr2:180403725..180403744 59.96 55
downstream ENSMUSE00000224519 Chr2:180392669..180397288 CTCCGAAGAACAAACGAAGC Chr2:180393012..180393031 59.99 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GAAACGAAGGTCCCAGCTCT Chr2:180438602..180438622 60.77 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AAGGTCCCAGCTCTTTTCTTG Chr2:180438595..180438616 59.87 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 CATTCGCGTACTGAGTGCTT Chr2:180438653..180438673 59.1 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TCTAAATCTCGTGACTGGGAAA Chr2:180438641..180438663 58.83 40.91 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000038914