Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI38249
Trapped Gene
Serinc4 (ENSMUSG00000046110)
Vector Insertion
Chr 2: 121278367 - 121278905
Public Clones (sanger)
Private Clones not available
Severity of mutation (?) Insertion after 70% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000435707 (Chr2:121278832..121278904 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TACCTGGCCGAGTTATTTGG Chr2:121278872..121278891 59.95 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000435707 (Chr2:121278832..121278904 -)
Downstram Exon
ENSMUSE00000684602 (Chr2:121278368..121278416 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TACCTGGCCGAGTTATTTGG Chr2:121278872..121278891 59.95 50 CATCCTCTGGCTCCACTGTT Chr2:121278346..121278365 60.26 55

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000714866 Chr2:121282191..121282517 CAGCACGGTGGAGTCAGTAA Chr2:121282216..121282235 59.9 55
upstream ENSMUSE00000719847 Chr2:121282191..121282517 CAGCACGGTGGAGTCAGTAA Chr2:121282216..121282235 59.9 55
upstream ENSMUSE00000339048 Chr2:121281727..121281891 GTAGCCGCCTGCTCTACATC Chr2:121281811..121281830 60.01 60
upstream ENSMUSE00000684597 Chr2:121281727..121281891 GTAGCCGCCTGCTCTACATC Chr2:121281811..121281830 60.01 60
upstream ENSMUSE00000435759 Chr2:121281511..121281577 AGTGCTATGTGCCCACCTGT Chr2:121281544..121281563 60.6 55
upstream ENSMUSE00000386149 Chr2:121281399..121281577 CTGCTAGTTCGCCTCCACTC Chr2:121281432..121281451 60.16 60
upstream ENSMUSE00000435748 Chr2:121281399..121281508 CTGCTAGTTCGCCTCCACTC Chr2:121281432..121281451 60.16 60
upstream ENSMUSE00000342523 Chr2:121281012..121281091 GGAGCCTCAAGCTGTTGTTC Chr2:121281067..121281086 60 55
upstream ENSMUSE00000408619 Chr2:121280680..121280773 TGGAGGCTTCACATTCATCC Chr2:121280732..121280751 61.02 50
upstream ENSMUSE00000332053 Chr2:121279734..121279945 CCAGTACACACACCCTGACG Chr2:121279824..121279843 60.06 60
upstream ENSMUSE00000435683 Chr2:121279445..121279540 CTGGCCTCCTACAAGCCTCT Chr2:121279509..121279528 60.91 60
upstream ENSMUSE00000435678 Chr2:121279218..121279344 GCTTGTGTGCTCTTTGCTTG Chr2:121279218..121279237 59.79 50
upstream ENSMUSE00000435707 Chr2:121278832..121278904 TACCTGGCCGAGTTATTTGG Chr2:121278872..121278891 59.95 50
upstream ENSMUSE00000684603 Chr2:121278832..121278904 TACCTGGCCGAGTTATTTGG Chr2:121278872..121278891 59.95 50
upstream ENSMUSE00000435702 Chr2:121278368..121278416 AACAGTGGAGCCAGAGGATG Chr2:121278368..121278387 60.26 55
upstream ENSMUSE00000684602 Chr2:121278368..121278416 AACAGTGGAGCCAGAGGATG Chr2:121278368..121278387 60.26 55

*** Putative Vector Insertion (Chr 2: 121278367 - 121278905) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000435696 Chr2:121278091..121278241 AAGCAAGGAAGAAGGCGAAG Chr2:121278106..121278125 61 50
downstream ENSMUSE00000684601 Chr2:121278091..121278241 AAGCAAGGAAGAAGGCGAAG Chr2:121278106..121278125 61 50
downstream ENSMUSE00000336536 Chr2:121276916..121277910 TGGAACCAGAAAGGGTCTTG Chr2:121277427..121277446 60.08 50
downstream ENSMUSE00000641685 Chr2:121276916..121277910 TGGAACCAGAAAGGGTCTTG Chr2:121277427..121277446 60.08 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ATCTAATCGCCTTGCAGCAC Chr2:121278837..121278857 60.38 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 TGTGGATTATCCGTGACTGG Chr2:121278845..121278865 59.37 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000046110