Transcript (Accesion No.)

Primers/probe sequences

Kv11.1 (U87513)

forward: 5'-GCTCATTGGCTCCCTCATG-3' 
reverse: 5'-CCGAGTACAGCCGCTGGAT-3' 
probe: 5'-FAM-TTCGGCAACGTGTCCGCCAT-TAMRA-3'

Kv7.1 (AJ291316)

forward: 5'-AGGAGCTGATCACCA-3' 
reverse: 5'-GTAGGAGGAGAAGATG-3' 
probe: 5'-FAM-AGGCCGAGGAAGCCGATGTA-TAMRA-3'

Kv4.2 (AF493547)

forward: 5'-CAGATCAGATGTGTGGAGAGAACA-3' 
reverse: 5'-CACAGTTTAGTTTAACACACTCTTCCAT-3' 
probe: 5'-FAM-TGTCTAACAGCCGATCCAGTTTAAATGCCA-TAMRA-3'

Kv4.3 (AF085170)

forward: 5'-ATTGATGAGCAGATG-3' 
reverse: 5'-GTAGTTCTGCATTGA-3' 
probe: 5'-FAM-TCTCCATGCAGTTCTGCT-TAMRA-3'

18S rRNA (EF060919)

forward: 5'-GAGGGAGCCTGAGAAACGG-3' 
reverse: 5'-GTCGGGAGTGGGTAATTTGC-3' 
probe: 5'-FAM-TACCACATCCAAGGAAGGCAGCAGG-TAMRA-3'

HIV-1 PR D25K

forward: 5'-GAAGCTCTGCTGAAGACTGGCGCTGACGATACC-3' 
reverse: 5'-GGTATCGTCAGCGCCAGTCTTCAGCAGAGCTTC-3'

HIV-1 PR D25R

forward: 5'-GAAGCTCTGCTGCGTACTGGCGCTGACGATACC-3' 
reverse: 5'-GGTATCGTCAGCGCCAGTACGCAGCAGAGCTTC-3'

HIV-1 PR D25W

forward: 5'-GAAGCTCTGCTGTGGACTGGCGCTGACGATACCG-3' 
reverse: 5'-CGGTATCGTCAGCGCCAGTCCACAGCAGAGCTTC-3'

HIV-1 PR G49E

forward: 5'-CCAAAAATGATAGGGGAAATTGGAGGTTTTATCAAAG-3' 
reverse: 5'-CTTTGATAAAACCTCCAATTTCCCCTATCATTTTTGG-3'

HIV-1 PR G49W/I50W

forward: 5'-CCAAAAATGATAGGGTGGTGGGGAGGTTTTATCAAAG-3'
reverse: 5'-CTTTGATAAAACCTCCCCACCACCCTATCATTTTTGG-3'

HIV-1 PR D25R/G49E/I50R

forward: 5'-CCAAAAATGATAGGGGAAAGAGGAGGTTTTATCAAAGTAAGAC-3' 
reverse: 5'-GTCTTACTTTGATAAAACCTCCTCTTTCCCCTATCATTTTTGG-3'

CMV promoter

forward: 5'-GCGGGATCCGGAGTTCCGCGTTACATAAC-3'
reverse: 5'-CGCACGCGTGCGCTCTGCTTATATAG-3'

pMDLg/pRRE D25K

forward: 5'-GGCAATTAAAGGAAGCTCTATTAAAGACAGGAGCAGATGATACAG-3'
reverse: 5'-CTGTATCATCTGCTCCTGTCTTTAATAGAGCTTCCTTTAATTGCC-3'

pMDLg/pRRE D25R

forward: 5'-GGCAATTAAAGGAAGCTCTATTACGTACAGGAGCAGATGATACAG-3'
reverse: 5'-CTGTATCATCTGCTCCTGTACGTAATAGAGCTTCCTTTAATTGCC-3'

pMDLg/pRRE dN

A (outer, forward): 5'-GGCCCCTAGGAAAAAGGGCTGTTGGAAATG-3'
B (inner, reverse): 5'-GGGTCGCTGCCAAAGAGTGAAGCTAAAGG-3'
C (inner, forward): 5'-CCTTTAGCTTCACTCTTTGGCAGCGACCC-3'
D (outer, reverse): 5'-GGGCCCTGCAGGATGTGGTATTCCTAATTG-3'

pMDLg/pRRE dC

A (outer, forward): 5'-GGCCCCTAGGAAAAAGGGCTGTTGGAAATG-3'
B (inner, reverse): 5'-CAATAGGACTAATGGGAGTGCAGCCAATC-3'
C (inner, forward): 5'-GATTGGCTGCACTCCCATTAGTCCTATTG-3'
D (outer, reverse): 5'-GGGCCCTGCAGGATGTGGTATTCCTAATTG-3'

PAI-1

forward: 5'- ATCTTCGTCCAGCGG -3'

probe: 5'- FAM-ATCTGAAGCTGGTCCAGGGCTTCA-TAMRA -3'

reverse : 5'- GCCTGAAGAAGTGGG -3'

PAI-2

forward: 5'- GCTCTGCAATCAATGCA -3'

probe: 5'- FAM-ACAGGGGATTATTTACTGGAAAGTGTCA- TAMRA -3'

reverse:  5'- GACTTCTCACCAAACAG -3'

uPA

forward: 5'- GCGCTGACACGCTTGCT – 3’

probe: 5'- FAM-ACCACAACGACATTGCCTTGCTGAAGA-TAMRA – 3’

reverse: 5'- CACCTGCCCTCCTTGGAA – 3’

tPA

forward: 5’- GTGCCCCGAAGGATTTG – 3’

probe: 5'- FAM-ACGTGGCCCTGGTATCTATTTCACAGCA-TAMRA – 3’

reverse : 5'- ATGCCCTGGTCCTCGTA – 3’

HIV-1 CA W23A

forward: 5’-CAC CTA GAA CTT TAA ATG CAG CGG TAA AAG TAG TAG AAG AGA AGG-3’

reverse: 5’- CCT TCT CTT CTA CTA CTT TTA CCG CTG CAT TTA AAG TTC TAG GTG-3’

HIV-1 CA A77P

forward: 5’-GAC CAT CAA TGA GGA ACC TGC AGA ATG GGA TAG AG-3’

reverse: 5’-CTC TAT CCC ATT CTG CAG GTT CCT CAT TGA TGG TC-3’

HIV-1 CA A78V

forward: 5’-CCA TCA ATG AGG AAG CTG TAG AAT GGG ATA GAG TAC-3’

reverse: 5’-GTA CTC TAT CCC ATT CTA CAG CTT CCT CAT TGA TGG-3’

HIV-1 CA L189F

forward: 5’-GGA TGA CAG AAA CCT TCT TGG TCC AAA ATG CGA AC-3’

reverse: 5’-GTT CGC ATT TTG GAC CAA GAA GGT TTC TGT CAT CC-3’

HIV-1 CA L189I

forward: 5’-AAT TGG ATG ACA GAA ACC ATC TTG GTC CAA AAT GCG AAC-3’

reverse: 5’-GTT CGC ATT TTG GAC CAA GAT GGT TTC TGT CAT CCA ATT-3’

HIV-1 CA L189P

forward: 5’-AAT TGG ATG ACA GAA ACC CCG TTG GTC CAA AAT GCG AAC-3’

reverse: 5’-GTT CGC ATT TTG GAC CAA CGG GGT TTC TGT CAT CCA ATT-3’

HIV-2 PR D25N

Asp25 - Asn25

5’ GAAGTTTTGTTAAATACGGGAGCTGAC 3’

HIV-2 Tat  Y44A

Tyr44 - Ala44 (GCC)

5’CTCTCTCAGCTAGCCCGACCCCTAGAAAC 3'

HIV-2 Rev H73R

H73 - R73

5' CCAGACTATACAGCGTCTGCAGGGACTTAC  3'

HIV-2 Vif S144A

Ser144 - Ala144

5' GAGCCCAGGTACCGGCACTTCAATTTCTG 3'

HIV-2 Vpr R78A

Arg78 - Ala78

5' TTCACGCACTTCGCAGCAGGATGTGGCC 3'

HIV-2Vpx K68A, R70A

Lys68 - Ala68

Arg70  – Ala70

5' GGGATGTCAGAAAGTTACACAGCGTATAGATATTTGTGCATAATACAG 3'

5' GTTACACAGCGTATGCATATTTGTGCATAATACAG 3'

N1

5’-GAGAACCTGTACTTCCAGGGTGGTGCATCTACACGCGG

TTTAATTAATCTTCTGCTAGCATGGTGAGCAAGGGCG-3’

N2

5’-GGGGACAAGTTTGTACAAAGCAGGCTCGGAGAACCTGTACTTCCAG-3’

C

5’-GGGGACACACTTTGTACAAGAAAGCTGGGTTATTACTTGTA

CAGCTCGTCCAT-3’

pDest-His6-MBP-FP sequencing FW

5'-GATGAAGCCCTGAAAGACGCGCAG-3'

pDest-His6-MBP-HIV-1 MA/CA P5-P4' FW

5’-TAAAGTGAGCCAGAACTATCCGATTGTGCAGG-3’

pDest-His6-MBP-HIV-1 MA/CA P5-P4' REV

5’-CTAGCCTGCACAATCGGATAGTTCTGGCTCACTTTAAT-3’

PR/IN 10aa forward

5’- TAAAGTACCCACCATCAATAATGTCCATACAAGTG - 3’

PR/IN 10aa reverse

5’- GATCCACTTGTATGGACATTATTGATGGTGGGTACTTTAAT - 3’

PR/IN 20aa forward

5’- TAAACCATCAAATATCTCCGTACCCACCATCAATAATGTCCATACAAGTGAAAGT ACACGCAAAG - 3’

PR/IN 20aa reverse

5’-GATCCTTTGCGTGTACTTTCACTTGTATGGACATTATTGATGGTGGGTACGGAGATATTTGATGGTTTAAT - 3’

PR/IN 20aa glycin forward

5’- TAAAGGAGGCGGGGGTGGAGTACCCACCATCAATAATGTCCATACAAGTGGAGGC GGGGGTGGAG - 3’

PR/IN 20aa glycin reverse

5’ - GATCCTCCACCCCCGCCTCCACTTGTATGGACATTATTGATGGTGGGTACTCC ACCCCCGCCTCCTTTAAT - 3’

IN/RT 10aa forward

5’- TAAAATTCACCTGATTGCAGCTGTAAAAGCAGTAG - 3’

IN/RT 10aa reverse

5’- GATCCTACTGCTTTTACAGCTGCAATCAGGTGAATTTTAAT - 3’

IN/RT 20aa forward

5’- TAAAAGATCGAAGAAACGAATTCACCTGATTGCAGCTGTAAAAGCAGTAAAATCAATCAAACCAG - 3’

IN/RT 20aa reverse

5’- GATCCTGGTTTGATTGATTTTACTGCTTTTACAGCTGCAATCAGGTGAATTCGTTTCTTCGATCTTTTAAT - 3’

GAG/PR 10aa forward

5’- TAAAACAGCCAGGGCTCACAATGTATCCACATCTG - 3’

GAG/PR 10aa reverse

5’- GATCCAGATGTGGATACATTGTGAGCCCTGGCTGTTTTAAT - 3’

GAG/PR 20aa forward

5’-TAAAAATTCGAAATCGAAAACAGCCAGGGCTCACAATGTATCCACATCTAATAACTCTCCCAGCG - 3’

GAG/PR 20aa reverse

5’- GATCCGCTGGGAGAGTTATTAGATGTGGATACATTGTGAGCCCTGGCTGTTTTCGATTTCGAATTTTTAAT - 3’

Primer name

Primer

Ty1 PR forward

5'-GCGCATATGAATGTATCCACATCTAATAACTCTCC-3

Ty1 PR reverse

5'-CGCGGATCCATTGATGGTGGGTACGG-3'

New-cloning cassette forward

5’TAATCTTCTGGATCCGGTGGCGGCGGCTCAGGTGGTGGTGGCTCGGGTGGCGGCGGTTCGGGCGGTGGTGGCTCAG-3’

New-cloning cassette reverse

5’CTAGCTGAGCCACCACCGCCCGAACCGCCGCCACCCGAGCCACCACCACCTGAGCCGCCGCCACCGGATCCAGAAGATTAAT-3’

sequencing forward primer

5'-GATGAAGCCCTGAAAGACGCGCAG-3'

Primer number

Primer name

Sequence

1.

PEG10 XhoI mutagenesis

5′-gagctctcccacctggaggtcgccaagtcg-3′

2.

PEG10 frameshift mutant primer

5′-cttcgccggcgggaaaactccccggcccc-3′

3.

RF1_PEG10 and RF1/RF2_PEG10 pQE-TriSystem forward- HindIII

5′-gctcaagcttatgaccgaacgaagaagggac-3′

4.

RF2_PEG10 pQE-TriSystem forward- HindIII

5’-gctcaagcttaaactccccggccccgctg-3′

5.

RF1_PEG10 pQE-TriSystem reverse1-Thrombin

5′-ggatccacgcggaaccagcagcggggccggggagtttc-3′

6.

RF2_PEG10 and RF1/RF2_PEG10 pQE-TriSystem reverse1- Thrombin

5′-ggatccacgcggaaccaggtacgttgccaggtgtgc-3′

7.

RF1_PEG10, RF2_PEG10 and RF1/RF2_PEG10 pQE-TriSystem reverse2-XhoI

5′-ctactcgagggatccacgcgaaccag-3′

8.a

PR_PEG10_D369A/D370A forward primer

5′-ccgaggccatgatcgcttctggtg-3′

8.b

PR_PEG10_D369A/D370A reverse primer

5′-ccagaagcaccagaagcgatcatggctcgg-3′

9.a

PR_PEG10_S371A forward primer

5′-gagccatgatcgatgctggtgcttctggc-3′

9.b

PR_PEG10_S371A reverse primer

5′-gccagaagcaccagcatcgatcatggctc-3′

10.a

His₆-MBP-_fsRF1/RF2_PEG10-mTurquoise2 forward primer

5′-gcttaattaaaatgaccgagcgtcgtcgtg-3′

10.b

His₆-MBP-_fsRF1/RF2_PEG10-mTurquoise2 reverse primer

5′-tagctagcgctcgcatcatcttgcggg-3′

Name

Sequence

forward-BamH1-SASP37

5’-G ATA GGA TCC GGG AGC CCA GGG GC-3’

forward-BamH1-SASP28

5’-G ATA GGA TCC GCC GGG AGC GGA GCC-3’

forward-BamH1-SASP14

5’-G ATA GGA TCC AGC ATC GGT AAG GGC-3’

reverse-EcoR1-SASP37/28

5’-CT ATT GAA TTC TCA GTG GGA TAG CTC CTG CCG-3’

reverse-EcoR1-SASP14

5’-CT ATT GAA TTC TCA CTC CAG GTC AAA CTC ATC TTC CAG-3’

SASP14-∆(K118-E136)

5’-GCA CCC TGA AAG GGT AGA AGT TTC GCC TG-3’

SASP14-N103G/D107G/E109G

5’-GAC CAC GGT GCT ATC CTG GGC TTT GGG CAC CGC ACA TGC-3’

SASP14-N103G

5’-GAT GTG CTC CAG GAC CAC GGT GCT ATC CTG GGC TTT GGG-3’

SASP14-K116G

5’-CGC ACA TGC ACC CTG GGA GGG AAG AAG TTT GGC-3’

SASP28-A189K/N190I

5’-CTG CCC AAA GAG ATC GTC TTT AAG ATC AGC ATG GGT AAG GGC TAC-3’

SASP28-A189K/N190I

5’-CTG CCC AAA GAG ATC GTC TTT AAG ATC AGC ATG GGT AAG GGC TAC-3’

SASP28-A167G/L168G

5’-G GG ACT GTG AAA GAG GGC GGC CTG AAG GCC TTT GGG-3’