CoronaVIR: Collection and compilation of Computational Resources on Novel Coronavirus (SARS-CoV-2 or COVID-19)

Welcome to Page of Diagnostic Primers

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This page provides the information of Predicted Diagnostic Primers which can be used for the diagnosis of CoVID-19. These primers are predicted by Primer3_Core tool with default parameters. These primers are designated for N-gene of the strain based in template sequences of the genes taken from NCBI Virus Resource.

Note: These primers need experimental Validation.

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Table representing the predicted primers by Primer3_core for N-gene of nCoV-2019 strain diagnosis

Template Source ID	Template Source country	Gene	Fwd_Primer seq	Rev_Primer seq	oligo seq	Fwd_Primer Start Position	Fwd_Length	Rev_Primer Start Position	Rev_Length	Oligo Start pos	Oligo_Length	Target_Product size	Fwd_Primer Tm	Rev_Primer Tm	Oligo Tm	Fwd (GC%)	Rev (GC%)	Oligo (GC%)
MT163715	India	N	GCTTGAGAGCAAAATGTCTGG	GATTAGTTCCTGGTCCCCAAA	AAAGGCCAACAACAACAAGG	39	21	228	21	61	20	190	60.008	60.173	60.008	47.619	47.619	45
MT163715	India	N	GCTTGAGAGCAAAATGTCTGG	ATTAGTTCCTGGTCCCCAAAA	AAAGGCCAACAACAACAAGG	39	21	227	21	61	20	189	60.008	59.69	60.008	47.619	42.857	45
MT163715	India	N	GCTTGAGAGCAAAATGTCTGG	TTAGTTCCTGGTCCCCAAAAT	AAAGGCCAACAACAACAAGG	39	21	226	21	61	20	188	60.008	59.69	60.008	47.619	42.857	45
MT163715	India	N	GCTTGAGAGCAAAATGTCTGG	ATTAGTTCCTGGTCCCCAAAAT	AAAGGCCAACAACAACAAGG	39	21	227	22	61	20	189	60.008	59.952	60.008	47.619	40.909	45
MT163715	India	N	GAGCAAAATGTCTGGTAAAGGC	GATTAGTTCCTGGTCCCCAAA	GTCCAGAACAAACCCAAGGA	45	22	228	21	185	20	184	60.136	60.173	59.943	45.455	47.619	50
MT163714	India	N	CTCTTCTCGTTCCTCATCACG	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	18	21	179	21	59	20	162	59.997	60.008	59.874	52.381	47.619	50
MT163714	India	N	AGTCAAGCCTCTTCTCGTTCC	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	10	21	179	21	59	20	170	60.009	60.008	59.874	52.381	47.619	50
MT163714	India	N	GTCAAGCCTCTTCTCGTTCCT	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	11	21	179	21	59	20	169	60.009	60.008	59.874	52.381	47.619	50
MT163714	India	N	AGCCTCTTCTCGTTCCTCATC	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	15	21	179	21	59	20	165	59.972	60.008	59.874	52.381	47.619	50
MT163714	India	N	GCTTGAGAGCAAAATGTCTGG	GATTAGTTCCTGGTCCCCAAA	AAAGGCCAACAACAACAAGG	159	21	348	21	181	20	190	60.008	60.173	60.008	47.619	47.619	45
LC523808	Philippines	N	GTAACCAGAATGGAGAACGCA	ATGTTGAGTGAGAGCGGTGAA	GCCCCAAGGTTTACCCAATA	9	21	109	21	55	20	101	60.125	60.849	60.902	47.619	47.619	50
LC523808	Philippines	N	TAACCAGAATGGAGAACGCAG	ATGTTGAGTGAGAGCGGTGAA	GCCCCAAGGTTTACCCAATA	10	21	109	21	55	20	100	60.256	60.849	60.902	47.619	47.619	50
LC523808	Philippines	N	TTCACCGCTCTCACTCAACAT	TTTCATTTTACCGTCACCACC	ACCGAAGAGCTACCAGACGA	89	21	238	21	192	20	150	60.849	59.716	60.012	47.619	42.857	50
LC523808	Philippines	N	TGGCAGTAACCAGAATGGAGA	ATGTTGAGTGAGAGCGGTGAA	GCCCCAAGGTTTACCCAATA	4	21	109	21	55	20	106	60.642	60.849	60.902	47.619	47.619	50
LC523808	Philippines	N	TTCACCGCTCTCACTCAACAT	TCATTTTACCGTCACCACCAC	ACCGAAGAGCTACCAGACGA	89	21	236	21	192	20	148	60.849	60.663	60.012	47.619	47.619	55
MT081064	China	N	CTCTTCTCGTTCCTCATCACG	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	546	21	707	21	587	20	162	59.997	60.008	59.874	52.381	47.619	50
MT081064	China	N	AGTCAAGCCTCTTCTCGTTCC	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	538	21	707	21	587	20	170	60.009	60.008	59.874	52.381	47.619	50
MT081064	China	N	GTCAAGCCTCTTCTCGTTCCT	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	539	21	707	21	587	20	169	60.009	60.008	59.874	52.381	47.619	50
MT081064	China	N	AGCCTCTTCTCGTTCCTCATC	CCAGACATTTTGCTCTCAAGC	ATTCAACTCCAGGCAGCAGT	543	21	707	21	587	20	165	59.972	60.008	59.874	59.972	47.619	50
MT081064	China	N	GCTTGAGAGCAAAATGTCTGG	GATTAGTTCCTGGTCCCCAAA	AAAGGCCAACAACAACAAGG	687	21	876	21	709	20	190	60.008	60.173	60.009	47.619	47.619	45