. 2021 May 27;12(6):822. doi: 10.3390/genes12060822

Table 3.

Sequence alignment and the presence of isotype-specific conserved nucleotide consensus sequences in the cotton chloroplast tRNAs.

tRNA Isotype	AC-Arm	D-Arm	D-Loop	ANC-Arm	ANC-Loop	Variable Region	Ψ-Arm	Ψ-Loop
Alanine	GGGGAUA	GCUC	AGUUGGUA	CCGCU	CUUGCAU	AUGUC	AGCGG	UUCGAGU
Arginine	GXGXCX₂	Gx₃	AX₂GGAUA	*****	CUXCXAA	GU	GG	UUCGAAU
Asparagine	GUCGGGA	GCUC	AGUUGGUA	GUCGG	CUGUUAA	UGGUC	GUAGG	UUCGAAU
Aspartate	GGGAUUG	GUUC	AAUUGGUCA	CCGCC	CUGUCAA	AAGCU	GCGGG	UUCGAGC
Cysteine	GGCGACA	GCC	GAGCGGUAA	GGGGA	CUGCAAA	UAUUC	CCCAG	UUCAAAU
Glutamate	GX₂CX₃	GX₃	AGXGGUX_1–3	CX₂CX	CUUUCAX	X₂GX_1–2	X₃GX	UUCXAXU
Glutamine	UGGGGCG	GCC	AAGUGGUAA	CGGG	UUUUGGU	CUAUGC	GGAGG	UUCGAAU
Glycine	GCGGAUA	GU	CGAAUGGUAAA	UCUCU	UUGCCAA	AGAC	GCGGG	UUCGAUU
Histidine	GCGGAUG	GCC	AAGUGGAUCAA	GUGGA	UUGUGAA	CAUGC	GCGGG	UUCAAUU
Isoleucine	GCAUCCA	GCU	GAAUGGUUAA	CCCAA	CUCAUAA	AAUUC	GUAGG	UUCAAUU
Leucine	GX₆	GXG	AAAUXGX_3–4A	X₃GX	CUX₄A	XGX_9–12	X₃GG	UUCXAGU
Lysine	GGGUUGC	ACUC	AACGGUA	UCGG	CUUUUAA	CUAGUU	CCGGG	UUCGAGU
Methionine	XCX_5–6	X₃G	AGUX_5–6	*****	XUCAUAX	X₂GUC	AUXGG	UUCAAAU
Phenylalanine	GUCGGGA	GCUC	AGUUGGUA	GAGGA	CUGAAAA	GUGUC	ACCAG	UUCAAAU
Proline	AGGGAUG	GCGC	AGCUUGGUA	UUUGU	UUUGGGU	AUGUC	ACGGG	UUCAAAU
Serine	GGAGAGA	GCX_1–2	X₄GX_3–4A	X₂GX_1–2	XUXGXAX	X₄GX_15–19	GAGGG	UUCGAAU
Threonine	XGCCX_0–4	XCUC	AGXGGUA	XCGCX	X₃GUAA	X₂GUC	AUCGG	UUCX₃U
Tryptophan	GCGCUCU	GUUC	AGUUCGGUA	UGGGU	CUCCAAA	AUGUC	GUAGG	UUCAAAU
Tyrosine	GGGUCGA	CCCG	AGCGGUUAA	ACGGA	CUGUAAA	GGCA	GCUGG	UUCAAAU
Valine	AGGGAUA	ACUC	AGCGGUA	UCACC	UUGACGU	AAGUC	AUCAG	UUCGAGC

Note: The asterisk (*****) shows the absence of conserved nucleotide consensus sequence in the respective region of the chloroplast tRNAs.