TABLE S1
NAME
SET1
OLIGONUCLEOTIDE SEQUENCES
atggagctttcttaccagactctca (F)
tacagactcaaacttctcttgccag (R)
PURPOSE OR CONSTRUCT
SET2
cgcccgggaatggagctttcttaccagact (F)
gcctcgagttatacagactcaaacttctcttgcc (R)
For cloning of full-length Katnal2-S1 and L1 into
vectors pGEX-4T-1 and pSVmyc1.0 (Santama et
al., 1998) as an XmaI (SmaI)/XhoI in-frame
fragment (Fig. 2, Fig. S8).
SET3
cgctcgagcatggagctttcttaccagactctcaaac (F)
cgggtaccttatacagactcaaacttctcttgccag (R)
For cloning of full-length Katnal2-S1 and L1 into
vectors pRSETB, and pEGFP-C2 as an XhoI/KpnI
in-frame fragment (Fig. S8).
SET4
cgcgcggccgccatggagctttcttaccagactc (F)
gctctagattatacagactcaaacttctcttgccagg (R)
For cloning of full-length Katnal2-S1 and L1 into
vector pFLAG-CMV-2 as a NotI/XbaI in-frame
fragment. Katnal2 cDNAs were excised as
HindIII/Smal fragments for subsequent in-frame
subcloning into vector mCherry-C3 (Fig. S8 and
Fig. 7).
SET5
tggtgagccgggacatttatc (F)
cagtccagctcccatggca (R)
For a diagnostic RT-RCR, resulting in a 508 bp
product, common to all Katnal2 isoforms (Fig. 1C).
SET6a
ggacggcgagttcatctaca (F)
ttgtacagctcgtccatgcc (R)
For the amplification of a diagnostic product of 351
bp within the mCherry ORF (Fig. 7A)
SET6b
ggacggcgagttcatctaca (F)
cgtctgagagcagtcctcgga (R)
For the amplification of a diagnostic product of 560
bp (mCherryKATNAL-S1) and a product of 962 bp
(mCherryKATNAL-L1). These products span the
mCherry/ KATNAL2 junction in the fusion cDNA
(Fig. 7A).
SET7a
catccgcaagcctgtgactg (F)
ggcgctttcgtgcttccttg (R)
For the amplification of a diagnostic fragment of
368 bp of mouse ribosomal protein L19 transcript,
serving as a reference internal control and
normalizing sample in RT-qPCR (Fig. 4A).
SET7b
tgaggtgtgcaccatgaac (F)
cagaatgtgcttgccatagg (R)
For the amplification of a diagnostic fragment of
187 bp of mouse pumilio homolog 1 transcript
variant 2 (PUM1), serving as a second reference
internal control and normalizing sample in RTqPCR (Fig. 4A).
SET8a
tggtgagccgggacatttatc (F)
gcttctttgactagctgcttgg (R)
SET8b
cacaagaaggctacatggatgc (F)
cctccacttcgtgacggtaaat (R)
For the amplification of a diagnostic fragment of 91
bp, common to all katnal2 isoforms, by RT-qPCR,
following shRNA-mediated silencing, in order to
assess silencing efficiency (Fig. 4A).
For the amplification of a diagnostic fragment of
207 bp, specific to the L-type katnal2 isoforms, by
RT-qPCR, following shRNA-mediated silencing, in
order to assess silencing efficiency (Fig. 4A).
SET9
caaggctgttagagagataattgga (F)
cgatctcggcgaacacc (R)
For the amplification of the full-length ORF of
mouse Katnal2 cDNAs and cloning into vectors
pGEM-T easy or pCRII-TOPO (Fig. 1A).
For the amplification of a 1272 bp product from the
shRNA-bearing cassette in vector pLKO1 by PCR
of genomic DNA for genotyping confirmation of
shRNA-silenced clones 2.43 and 3.81.