Table 1: List of oligonucleotides used in this study.

NameSequenceAmplicon size (bp)Details

RT-PCR for validation of Alu-exonized transcript and identification of TSEN54 alternative transcripts
TSEN54 RT_S15′-GGT TCC GGG AAG ATG TCA AC-3′236
TSEN54 RT_S25′-GCC AAG GTG GGC AGA TCA-3′404
TSEN54 RT_AS5′-CAG CTG GGC ACC TCC ATC-3′

qRT-PCR for the expression features of TSEN54 transcripts
TSEN54 qRT_S15′-CAG CTG TGG TCC TTC AGC-3′198Targeted to original transcript
TSEN54 qRT_AS15′-GGA CAG GCT CAT CAA ATC CAC-3′
TSEN54 qRT_S25′-TCA TGC CAC TAT ACT CCA GCC-3′213Targeted to Alu-exonized transcript in primate
TSEN54 qRT_AS25′-CAG CTG GGC ACC TCC ATC-3′
TSEN54 qRT_S2-15′-GCT AAA TCT GGC CGT CCT AA-3′112Targeted to Alu-exonized transcript in human
TSEN54 qRT_AS2-15′-AGC ACA GAG ATA TGC TGA AGG A-3′

qRT-PCR reference genes
ARL1 qRT_S5′-AGA CAG TTG TGA CCG AGA CC-3′136Cynomolgus monkey
ARL1 qRT_AS5′-TGA GGA AGT CAT GGC CTG TT-3′
MRFAP1 qRT_S5′-GCG GAT AGA GAA GAG CGA GT-3′82
MRFAP1 qRT_AS5′-AGC CAA TCT CCA CCA GTT GA-3′
ARFGAP2 qRT_S5′-GCG TCC ATC TGA GCT TCA TC-3′135
ARFGAP2 qRT_AS5′-CAT CAT TGG CTG TGC ATC CA-3′
RPL32 qRT_S5′-CAA CAT TGG TTA TGG AAG CAA CA-3′80Rhesus monkey and human
RPL32 qRT_AS5′-TGA CGT TGT GGA CCA GGA ACT-3′
RPL13A qRT_S5′-CCT GGA GGA GAA GAG GAA AGA GA-3′126Rhesus monkey
RPL13A qRT_AS5′-TTG AGG ACC TCT GTG TAT TTG TCA A-3′
HMBS qRT_S5′-ACC AAG GAG CTT GAA CAT GC-3′145Human
HMBS qRT_AS5′-GAA AGA CAA CAG CAT CAT GAG-3′
GAPDH qRT_S5′-GAA ATC CCA TCA CCA TCT TCC AGG-3′120
GAPDH qRT_AS5′-GAG CCC CAG CCT TCT CCA TG-3′

Genomic DNA PCR for evolutionary analysis of AluSx insertion
TSEN54 GS5′-ATG GGA ATG CGG TAG ATT GT-3′508
TSEN54 GAS5′-AGG GGA GTC ACA TTT CTC AGT C-3′