|
Comparison of the sweet orange chloroplast genome with EST sequences obtained from GenBank and in-house database of Citrus sinensis source. |
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| Gene |
Gene size (bp) |
Sequence analyzeda |
Number of variable sites |
Variation typeb |
Position(s)c |
Amino Acid change |
Amino acid characteristicsd |
|
|
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| petL |
93 |
1–93 |
1 |
C-U |
5 |
P-L |
HPONP-HPONP |
| rps18 |
303 |
1–303 |
1 |
C-U |
227 |
I-I |
HPONP-HPONP |
| psbH |
219 |
1–219 |
1 |
C-U |
137 |
V-A |
HPONP-HPONP |
| ycf2 |
6840 |
1667–1947 |
2 |
C-A |
5045 |
A-D |
HPONP-HPIA |
| 5001–5841 |
A-U |
5633 |
G-L |
HPIP-HPONP |
|||
| ndhA |
1089 |
1–1089 |
1 |
C-U |
344 |
S-L |
HPIP-HPONP |
| rrn23 |
2810 |
1–2810 |
5 |
T-C |
950 |
-- |
|
| T-C |
878 |
-- |
|||||
| A-U |
1196 |
-- |
|||||
| A-G |
1376 |
-- |
|||||
| T-C |
1706 |
-- |
|||||
|
Putative RNA editing sites were determined by comparing EST sequence information from GenBank and the Citrus chloroplast genome sequence using Sequencher v 4.5. a Gene sequence which considers the first base of the initiating codon as 1. bVariation type: nucleotide in genomic DNA-nucleotide in mRNA. cVariable position is referenced to the first base of the initiating codon of the gene sequence. dHPONP-hydprophobic non-polar, HPIA-hydrophilic acidic, HPIP-hydrophilic polar. | |||||||
Bausher et al. BMC Plant Biology 2006 6:21 doi:10.1186/1471-2229-6-21 |
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