Table 3.
Protein-coding gene statistics of selected Viridiplantae
| |
|
C. reinhardtii |
P. patens |
P. patens |
S. moellendorffii |
O. sativa |
A. thaliana |
|---|---|---|---|---|---|---|---|
| (V4.1) | (V1.2) | (V1.6) | (FM3) | (V6.1) | (TAIR10) | ||
| Genes |
# |
15,935 |
27,726 |
32,275 |
22,259 |
40,577 |
27,206 |
| Transcripts |
# |
15,935 |
27,966 |
38,357 |
22,259 |
50,939 |
35,176 |
| Gene length [bp] |
x̄ |
5,363 |
2,499 |
2,369 |
1,699 |
2,816 |
2,190 |
| |
x̃ |
4,273 |
1,878 |
1,809 |
1,368 |
2,148 |
1,896 |
| Transcript length [bp] |
x̄ |
2,898 |
1,269 |
1,389 |
1,194 |
1,540 |
1,540 |
| |
x̃ |
2,284 |
987 |
1,248 |
987 |
1,395 |
1,388 |
| CDS length [bp] |
x̄ |
2,043 |
1,131 |
1,062 |
1,145 |
1,079 |
1,234 |
| |
x̃ |
1,425 |
867 |
813 |
951 |
879 |
1,053 |
| Exon length [bp] |
x̄ |
322 |
234 |
275 |
213 |
313 |
261 |
| |
x̃ |
155 |
145 |
155 |
128 |
158 |
147 |
| Intron length [bp] |
x̄ |
308 |
277 |
278 |
110 |
415 |
164 |
| |
x̃ |
238 |
206 |
213 |
59 |
169 |
100 |
| Exons per gene |
x̄ |
9.0 |
5.4 |
5.0 |
5.6 |
4.9 |
5.9 |
| |
x̃ |
7 |
4 |
3 |
4 |
3 |
4 |
| Introns per gene |
x̄ |
8.0 |
4.4 |
4.0 |
4.6 |
3.9 |
4.9 |
| |
x̃ |
6 |
3 |
2 |
3 |
2 |
3 |
| 5'-UTR exon length [bp] |
x̄ |
181 |
171 |
211 |
92 |
189 |
119 |
| |
x̃ |
138 |
127 |
157 |
50 |
122 |
88 |
| 5'-UTR intron length [bp] |
x̄ |
513 |
502 |
520 |
184 |
666 |
315 |
| |
x̃ |
274 |
353 |
390 |
70 |
355 |
239 |
| 3'-UTR exon length [bp] |
x̄ |
634 |
323 |
338 |
166 |
377 |
217 |
| |
x̃ |
537 |
299 |
311 |
110 |
316 |
201 |
| 3'-UTR intron length [bp] |
x̄ |
859 |
505 |
268 |
280 |
500 |
204 |
| |
x̃ |
470.5 |
215 |
213 |
65 |
180 |
104 |
| 5'-UTR length [bp] |
x̄ |
204 |
231 |
307 |
110 |
254 |
152 |
| |
x̃ |
158 |
184 |
258 |
54 |
156 |
112 |
| 3'-UTR length [bp] |
x̄ |
653 |
352 |
367 |
194 |
464 |
237 |
| |
x̃ |
551 |
322 |
334 |
121 |
358 |
210 |
| Multi exon transcript |
# |
15,322 |
23,758 |
29,378 |
18,789 |
40,859 |
29,050 |
| |
% |
96.1% |
84.9% |
76.6% |
84.4% |
80.2% |
82.6% |
| Single exon transcript |
# |
613 |
4,208 |
8,979 |
3,470 |
10,080 |
6,126 |
| |
% |
3.9% |
15.1% |
23.4% |
15.6% |
19.8% |
17.4% |
| Transcripts with both 5' and 3'-UTR |
# |
15,856 |
4,515 |
15,757 |
2,178 |
31,089 |
26,255 |
| Transcripts with 5'-UTR |
# |
15,896 |
5,691 |
18,180 |
2,506 |
31,793 |
27,097 |
| Transcripts with 3'-UTR |
# |
15,895 |
7,205 |
19,041 |
3,653 |
33,252 |
28,049 |
| Transcripts without UTR |
# |
0 |
19,585 |
16,893 |
18,278 |
16,983 |
6,285 |
| Multi exon 5'-UTR |
# |
1,743 |
1,556 |
7,120 |
399 |
7,940 |
6,486 |
| |
% |
11.0% |
27.3% |
39.2% |
15.9% |
25.0% |
23.9% |
| Single exon 5'-UTR |
# |
14,153 |
4,135 |
11,060 |
2,107 |
23,853 |
20,611 |
| |
% |
89.0% |
72.7% |
60.8% |
84.1% |
75.0% |
76.1% |
| Multi exon 3'-UTR |
# |
480 |
462 |
1,387 |
522 |
5,010 |
2,027 |
| |
% |
3.0% |
6.4% |
7.3% |
14.3% |
15.1% |
33.1% |
| Single exon 3'-UTR |
# |
15,415 |
6,743 |
17,654 |
3,131 |
28,242 |
26,022 |
| % | 97.0% | 93.6% | 92.7% | 85.7% | 84.9% | 92.8% |
Selected properties of structure and organization of protein-coding genes within Viridiplantae. A more detailed list can be found in Additional file 4: Table A3. x̄ - average x̃ - median # - amount.