Primer Set: MasonMar2022

---

{"data_server":"https://primer-monitor.neb.com/igvstatic","organism_slug":"sars-cov-2","organism_name":"SARS-CoV-2","reference_accession":"NC_045512.2","primer_set_display_name":"MasonMar2022","primer_set_name":"MasonMar2022","initial_lineage":"SW.2","lineage_names":{"TA.1":"TA.1*","RE.1.1":"RE.1.1*","RV.1.1":"RV.1.1*","RE.2":"RE.2*","PJ.2.1":"PJ.2.1*","ST":"ST*","PG.3.2":"PG.3.2*","RV":"RV*","B":"B*","TK.1":"TK.1*","SW.2":"SW.2*","SW.2.1":"SW.2.1*","RE.1":"RE.1*","RW":"RW*","XFZ":"XFZ*","RE.2.1":"RE.2.1*","BA.2.86":"BA.2.86*","SW":"SW*","B.60":"B.60*","SB":"SB*","SV":"SV*","PG":"PG*","ST.1":"ST.1*","RF":"RF*","TA":"TA*","RW.1":"RW.1*","A":"A*","RE":"RE*","SV.1":"SV.1*","RW.1.1":"RW.1.1*","RV.1.1.1":"RV.1.1.1*","TK":"TK*","PJ":"PJ*","RV.1":"RV.1*","PJ.2":"PJ.2*","PG.3":"PG.3*","all":"All"},"variant_overlaps_path":"/organisms/sars-cov-2/lineage_variants/variant_overlaps.json"}

Lineage:

SW* (447 in most recent 30 days)   └ SW.2* (447 in most recent 30 days)     └ SW.2.1* (447 in most recent 30 days) RV* (410 in most recent 30 days)   └ RV.1* (359 in most recent 30 days)     └ RV.1.1* (153 in most recent 30 days)       └ RV.1.1.1* (50 in most recent 30 days) TA* (401 in most recent 30 days)   └ TA.1* (401 in most recent 30 days) RF* (333 in most recent 30 days) PJ* (222 in most recent 30 days)   └ PJ.2* (222 in most recent 30 days)     └ PJ.2.1* (209 in most recent 30 days) RW* (162 in most recent 30 days)   └ RW.1* (162 in most recent 30 days)     └ RW.1.1* (162 in most recent 30 days) ST* (158 in most recent 30 days)   └ ST.1* (158 in most recent 30 days) SB* (156 in most recent 30 days) XFZ* (155 in most recent 30 days) TK* (139 in most recent 30 days)   └ TK.1* (139 in most recent 30 days) SV* (116 in most recent 30 days)   └ SV.1* (59 in most recent 30 days) B*   └ B.60* BA.2.86* PG*   └ PG.3*     └ PG.3.2* A* RE*   └ RE.2*     └ RE.2.1*   └ RE.1*     └ RE.1.1* All

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Primers:

Name	Locus	Category	Sequence
B1c-4	Orf1ab4	BIP	AGCTGTTTTGCAGAGTGGTT
B2-4	Orf1ab4	BIP	CCATACAACCCTCAACTTTA
B3-2	Orf1ab2	B3	AGTGTAGTTGTACCACAAGTT
B3-4	Orf1ab4	B3	AGTGTAGTTGTACCACAAGT
BIPe-2	Orf1ab2	BIP	AACCTCTATCACCTCAGCTGTTTTTGTACCATACAACCCT
BIPe-4	Orf1ab4	BIP	AGCTGTTTTGCAGAGTGGTTCCATACAACCCTCAACTTTA
F1c-4	Orf1ab4	FIP	TTGTGGTGGTTGGTAAAGAACATC
F2-4	Orf1ab4	FIP	TCATCTCGCAAAGGCT
F3-2	Orf1ab2	F3	CAGAGAAGCTGCTTGTTG
F3-4	Orf1ab4	F3	ACAACTAGCTACAGAGAAGC
FIPe-2	Orf1ab2	FIP	TGGTGGTTGGTAAAGAACATCAGCATCTCGCAAAGGCTCT
FIPe-4	Orf1ab4	FIP	TTGTGGTGGTTGGTAAAGAACATCTCATCTCGCAAAGGCT
LB-2	Orf1ab2	LB	GAAAAATGGCATTCCCATC
LB-4	Orf1ab4	LB	GAAAAATGGCATTCCCATC
LF-2	Orf1ab2	LF	ACCTGAGTTACTGAAGTCA
LF-4	Orf1ab4	LF	ACCTGAGTTACTGAAGTCA
N2-B1c	N1	BIP	AGCTGTTTTGCAGAGTGGTT
N2-B2	N1	BIP	CCATACAACCCTCAACTTTA
N2-B3	N1	B3	GCTTATTCAGCAAAATGACTTG
N2-BIP	N1	BIP	CGCGCATTGGCATGGAAGGGATCTTTGTCATCCAATTTGA
N2-F1c	N1	FIP	TTGTGGTGGTTGGTAAAGAACATC
N2-F2	N1	FIP	TCATCTCGCAAAGGCT
N2-F3	N1	F3	GACGTGGTCCAGAACAAAC
N2-FIP	N1	FIP	AGAACGCTGAAGCGCTGGGGACCAGGAACTAATCAGAC
N2-LB	N1	LB	TCACACCTTCGGGAACGTG
N2-LF	N1	LF	GGCCAATGTTTGTAATCAGTTC

All Primer Sets