Table 2

Comparison of the sweet orange chloroplast genome with EST sequences obtained from GenBank and in-house database of Citrus sinensis source.

Gene

Gene size (bp)

Sequence analyzeda

Number of variable sites

Variation typeb

Position(s)c

Amino Acid change

Amino acid characteristicsd


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

Open Data