Stock No: 007850
Protocol 13304: Pyrosequencing Assay - Foxn1<nu>
Version 4.1

Notes

This genotyping assay uses pyrosequencing technology and is run on the Biotage PSQ 96MA. The Jackson Laboratory is not posting the complete details of our pyrosequencing genotyping assays as the primers for pyrosequencing cannot be used for sequencing using more traditional methods. The wild type and mutant nucleotides and the flanking DNA sequence are provided below.
The genotyping protocol(s) presented here have been optimized for reagents and conditions used by The Jackson Laboratory (JAX). To genotype animals, JAX recommends researchers validate the assay independently upon receipt of animals into their facility. Reaction cycling temperature and times may require additional optimization based on the specific genotyping reagents used.

Expected Results

Mutant = deleted G

Sequence

GTTGCCTTCCCCGTCACTTTGGGACTCCTGTGAACTCAGCCATACTCTATTATCTCAGTA
CAGCACAGGGTCCTGGCAGATGCCCTGGTCCAACCCCCATTTACAGATTCTCTATTCTG
TCTGCCCAGAAGCATGCTAACTTCAGCTGCTCGTCGTTTGTGCCTGACGGCCCTCCAGA
GAGGACACCCTCACTGCCCCCACACAGCCCCAGCATCGCATCTCCAGACCCAGAGCAG
ATCCAGGGCCACTGCACAGCCGGACCCGGCCCGGGCTCCTTCCGCCTTTCTCCTTCAGA
AAAGTATCCTGGCTTTGGCTTTGAGGAGGGCCCAGCAGGCAGCCCA(ggg)CGCTTCCTCA
AGGGCAACCACATGCCTTTCCACCCCTACAAGAGGCACTTCCATGAGGACATCTTCTCT
GAGGCCCAGACGGCCATGGCACTTGATGGACACTCCTTTAAGACTCAGGGGGCACTGG
AAGCCTTTGAGGAGATCCCTGTGGACATGGGCGATGCTGAGGCCTTCCTGCCTAGCTTC
CCAGCAGAGGCTTGGTGCAATAAACTCCCTTACCCCAGCCAGGAACACAACCAAATTC
TGGTGAGTGCCAGTGGCCGAGGGCCTTCCACCTCCTCTCTCCTAGCTGCCTAGAAAGA
CTCTTCAAAGCCATGCCTGGTGGCACATGCCTGTAATCCTACTACTCAGGAGGCTGAGG
CAGGAGGACTGCTTGAGGCAGAGGCCAGCCTCTGCCTATGTATGGAGACCCTGTCTCC
AAATCAGAGCTCCAGAGGAGGCAGCAAGCACAGAGGGTGGGGGCCTCCTGGTTCCAT
ACTGGTCCCCTGGG

JAX Protocol

Protocol Primers

Primer 5' Label Sequence 5' → 3' 3' Label Primer Type Reaction Note
poIMR0148 TAA CTT CAG CTG CTC GTC GTT TGT
poIMR0149 Fluorophore CCT CAT GGA AGT GCC TCT TGT A
poIMR0150 AGC AGG CAG CCC AGG

Reaction A

Component Final Concentration
ddH2O
Kapa 2G HS buffer 1.00
MgCl2 2.00
dNTPS-kapa 0.20
poIMR0148 0.50
poIMR0149 0.50
Glycerol 5.00
Kapa 2G HS taq polym 0.01
DNA

Cycling

Step Temp °C Time Note
1 94.0 --
2 94.0 --
3 65.0 -- -0.5 C per cycle decrease
4 68.0 --
5 -- repeat steps 2-4 for 10 cycles
6 94.0 --
7 60.0 --
8 72.0 --
9 -- repeat steps 6-8 for 28 cycles
10 72.0 --
11 10.0 -- hold
JAX uses a very high speed Taq (~1000 bp/sec), use cycling times recommended for your reagents.

Strains Using This Protocol

Stock Number Strain Name
000819 B6.Cg-Foxn1nu/J
000711 CByJ.Cg-Foxn1nu/J
007850 J:NU
003118 STOCK Ces1ce Foxn1nu/J
4 strains use this protocol