Compositions and methods for detecting C1orf43 nucleic acid
This disclosure provides oligomers, combinations of oligomers, compositions, kits, uses, and methods for detecting a C1orf43 nucleic acid, such as C1orf43 mRNA, such as human C1orf43 mRNA, in a sample.
1. A combination of oligomers comprising at least first and second amplification oligomers, wherein the first and second amplification oligomers are reverse and forward amplification oligomers, respectively, and are configured to specifically hybridize to first and second sites in the sequence of SEQ ID NO: 39 and generate an amplicon therefrom, respectively;
wherein the first site is in the complement of SEQ ID NO: 52 and the first amplification oligomer comprises the sequence of SEQ ID NO:53 or SEQ ID NO:54;
wherein the second site is in the complement of SEQ ID NO: 46 and the second amplification oligomer comprises the sequence of SEQ ID NO: 47 or SEQ ID NO:48; and
wherein at least one of the amplification oligomers is a promoter-primer and/or the combination further comprises at least one probe oligomer that comprises at least 10 nucleotides, is configured to specifically hybridize to an amplicon produced from the first and second amplification oligomers, and (i) comprises 2′-O-methyl-ribose in its backbone and/or (ii) comprises a non-nucleotide detectable label.
2. The combination of claim 1 , wherein at least one of the amplification oligomers is a promoter-primer.
3. The combination of claim 1 , wherein the first amplification oligomer is a promoter-primer.
4. The combination of claim 3 , wherein the promoter-primer comprises a T7 promoter which is located 5′ of a target-hybridizing sequence and wherein the T7 promoter comprises the sequence of SEQ ID NO: 58.
5. The combination of claim 1 , wherein the first amplification oligomer comprises a target-hybridizing sequence comprising the sequence of SEQ ID NO: 27, 29, 31, or 33.
6. The combination of claim 1 , wherein the first amplification oligomer comprises the sequence of SEQ ID NO: 26, 28, 30, or 32.
7. The combination of claim 1 , wherein the second amplification oligomer comprises a target-hybridizing sequence comprising the sequence of SEQ ID NO: 34, 35, 36, 37, or 38.
8. The combination of claim 1 , wherein the combination further comprises at least one probe oligomer that comprises at least 10 nucleotides and is configured to specifically hybridize to an amplicon produced from the first and second amplification oligomers.
9. The combination of claim 8 , wherein the probe oligomer is configured to specifically hybridize to a detection site in a nucleic acid having the sequence of SEQ ID NO: 49.
10. The combination of claim 8 , wherein the probe oligomer comprises a target hybridizing sequence comprising the sequence of SEQ ID NO: 15, 17, 19, 21, 23, or 25.
11. The combination of claim 8 , wherein the probe oligomer comprises the sequence of SEQ ID NO: 14, 16, 18, 20, 22, or 24.
12. The combination of claim 8 , wherein the probe oligomer comprises 2′-O-methyl-ribose in its backbone.
13. The combination of claim 12 , wherein at least half, at least 90%, or all of the sugars in the probe oligomer are 2′-O-methyl-ribose.
14. The combination of claim 8 , wherein the probe oligomer comprises a non-nucleotide detectable label.
15. The combination of claim 14 , wherein the non-nucleotide detectable label is a fluorescent label.
16. The combination of claim 15 , wherein the probe oligomer comprises a quencher.
17. The combination of claim 14 , wherein the non-nucleotide detectable label is a chemiluminescent label.
18. A capture oligomer that is configured to specifically hybridize to a capture site in the sequence of SEQ ID NO: 39, wherein the capture oligomer comprises a target hybridizing sequence comprising the sequence of SEQ ID NO: 56 or 57, wherein the capture oligomer comprises 2′-O-methyl-ribose in its backbone, the capture oligomer comprises a non-nucleotide affinity label, and/or the capture oligomer comprises a non-C1orf43 sequence.
19. The capture oligomer of claim 18 , wherein the capture oligomer comprises a target hybridizing sequence comprising the sequence of SEQ ID NO: 5, 7, 9, 11, or 13.
20. The capture oligomer of claim 18 , wherein the capture oligomer comprises the sequence of SEQ ID NO: 4, 6, 8, 10, or 12.