Table 1 |
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|
Arabidopsis snRNA genes |
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|
Gene |
GeneID |
Chromosome |
Strand |
From |
To |
Length (nucleotides) |
e-value |
Similarity |
GenBank ID |
|
|
|||||||||
|
atU1a* |
At5g49054 |
5 |
- |
19903323 |
19903158 |
166 |
1E-89 |
1-166, 100% |
gi17660 |
|
atU1-2 |
At4g23415 |
4 |
+ |
12225621 |
12225786 |
166 |
1E-58 |
1-166, 92% |
gi22293582 |
|
atU1-3 |
At5g51675 |
5 |
+ |
21013986 |
21014149 |
164 |
4E-55 |
3-166, 91% |
|
|
atU1-4 |
At5g25774 |
5 |
- |
8972971 |
8972807 |
165 |
2E-51 |
1-166, 90% |
gi22293583 |
|
atU1-5 |
At1g08115 |
1 |
- |
2538238 |
2538073 |
166 |
1E-46 |
1-166, 89% |
gi22293581 |
|
atU1-6 |
At3g05695 |
3 |
+ |
1681815 |
1681977 |
163 |
4E-40 |
4-166, 87% |
|
|
atU1-7 |
At3g05672 |
3 |
+ |
1657766 |
1657928 |
163 |
4E-40 |
4-166, 87% |
gi22293580 |
|
atU1-8 |
At5g27764 |
5 |
+ |
9832576 |
9832740 |
165 |
1E-39 |
1-166, 87% |
|
|
atU1-9 |
At5g26694 |
5 |
- |
9494594 |
9494430 |
165 |
1E-27 |
1-166, 84% |
|
|
atU1-10 |
At1g11884 |
1 |
- |
4007396 |
4007236 |
161 |
1E-18 |
4-61, 93%; 80-166, 88% |
|
|
atU1-11p |
At4g16645 |
4 |
+ |
9370786 |
9370841 |
56 |
7E-17 |
4-59, 94% |
|
|
atU1-12p |
At4g23565 |
4 |
- |
12298871 |
12298802 |
70 |
1E-15 |
94-163, 90% |
|
|
atU1-13p |
At5g49524 |
5 |
- |
20112431 |
20112275 |
157 |
2E-14 |
4-50, 91%; 91-166, 88% |
|
|
atU1-14p |
At1g35354 |
1 |
+ |
12986822 |
12986908 |
87 |
1E-06 |
10-60, 88%; 84-118, 88% |
|
|
atU2-1 |
At1g16825 |
1 |
+ |
5758381 |
5758575 |
195 |
2E-88 |
1-196, 96% |
|
|
atU2.2* |
At3g57645 |
3 |
+ |
21357718 |
21357913 |
196 |
1E-107 |
1-196, 100% |
gi17661 |
|
atU2.3 |
At3g57765 |
3 |
- |
21408595 |
21408400 |
196 |
1E-95 |
1-196, 97% |
gi17662 |
|
atU2.4 |
At3g56825 |
3 |
- |
21052994 |
21052800 |
195 |
5E-86 |
1-196, 95% |
gi17663 |
|
atU2.5 |
At5g09585 |
5 |
+ |
2975013 |
2975208 |
196 |
7E-79 |
1-196, 93% |
gi17664 |
|
atU2.6 |
At3g56705 |
3 |
+ |
21015472 |
21015667 |
196 |
1E-83 |
1-196, 94% |
gi17665 |
|
atU2.7 |
At5g61455 |
5 |
- |
24730829 |
24730634 |
196 |
5E-86 |
1-196, 95% |
gi17666 |
|
atU2-8 |
At5g67555 |
5 |
+ |
26966884 |
26967079 |
196 |
5E-86 |
1-196, 95% |
|
|
atU2.9 |
At4g01885 |
4 |
+ |
815273 |
815466 |
194 |
2E-82 |
1-194, 94% |
gi17667 |
|
atU2-10 |
At2g02938 |
2 |
+ |
849777 |
849972 |
196 |
3E-93 |
1-196, 96% |
gi22293586 |
|
atU2-10b/12 |
At2g02940 |
2 |
+ |
852859 |
853054 |
196 |
3E-93 |
1-196, 96% |
|
|
atU2-11 |
At1g09805/09895 |
1 |
- |
3180736 |
3180547 |
190 |
8E-85 |
1-190, 95% |
|
|
atU2-13 |
At2g20405 |
2 |
+ |
8809169 |
8809364 |
196 |
3E-81 |
1-196, 94% |
gi22293584 |
|
atU2-14 |
At1g14165 |
1 |
+ |
4842274 |
4842469 |
196 |
3E-81 |
1-196, 94% |
gi22293585 |
|
atU2-15 |
At5g62415 |
5 |
+ |
25083790 |
25083985 |
196 |
4E-74 |
1-196, 92% |
|
|
atU2-16 |
At5g57835 |
5 |
- |
23448717 |
23448522 |
196 |
2E-67 |
1-196, 92% |
|
|
atU2-17 |
At5g14545 |
5 |
- |
4690105 |
4690008 |
98 |
3E-44 |
1-98, 97% |
|
|
atU2-18p |
At3g26815 |
3 |
+ |
9881236 |
9881303 |
68 |
2E-14 |
1-68, 89% |
|
|
atU4.1* |
At5g49056 |
5 |
- |
19902970 |
19902817 |
154 |
4E-80 |
1-154, 99% |
gi17673 |
|
atU4.2 |
At3g06900 |
3 |
- |
2178343 |
2178190 |
154 |
2E-75 |
1-154, 98% |
gi17674 |
|
atU4.3p |
At5g49526 |
5 |
- |
20112072 |
20112030 |
43 |
2E-11 |
15-57, 95% |
gi17675 |
|
atU4-4 |
At1g49242/49235 |
1 |
- |
18222354 |
18222201 |
154 |
2E-75 |
1-154, 98% |
gi22293588 |
|
atU4-5 |
At5g25776 |
5 |
- |
8972618 |
8972465 |
154 |
1E-70 |
1-154, 96% |
|
|
atU4-6 |
At1g11886 |
1 |
- |
4007020 |
4006867 |
154 |
1E-70 |
1-154, 96% |
gi22293587 |
|
atU4-7 |
At5g27766 |
5 |
+ |
9832934 |
9833083 |
150 |
7E-66 |
1-150, 96% |
|
|
atU4-8 |
At5g26996 |
5 |
- |
9494230 |
9494081 |
150 |
7E-66 |
1-150, 96% |
|
|
atU4-9 |
At1g79965 |
1 |
+ |
30086031 |
30086168 |
138 |
9E-47 |
18-154, 92% |
|
|
atU4-10 |
At1g35356 |
1 |
+ |
12987189 |
12987313 |
125 |
3E-34 |
1-124, 90% |
|
|
atU4-11p |
At1g68395 |
1 |
+ |
25647322 |
25647396 |
75 |
9E-07 |
18-37, 100%; 60-102, 90% |
|
|
atU5.1* |
At3g55865 |
3 |
- |
20740607 |
20740503 |
105 |
6E-35 |
1-105, 94% |
gi17676 |
|
atU5.1b |
At3g55855 |
3 |
- |
20736881 |
20736780 |
102 |
7E-38 |
1-102, 96% |
gi22293592 |
|
atU5-2 |
At1g65115 |
1 |
+ |
24194482 |
24194586 |
105 |
1E-39 |
1-105, 96% |
|
|
atU5-3 |
At1g70185 |
1 |
+ |
26433396 |
26433497 |
102 |
7E-38 |
1-102, 96% |
gi22293590 |
|
atU5-4 |
At3g55645 |
3 |
+ |
20653843 |
20653947 |
105 |
3E-37 |
1-105, 95% |
|
|
atU5-5 |
At1g24105/24095 |
1 |
- |
8525204 |
8525103 |
102 |
2E-35 |
1-102, 95% |
gi22293591 |
|
atU5-6 |
At1g04475 |
1 |
- |
1215831 |
1215730 |
102 |
2E-35 |
1-102, 95% |
gi22293589 |
|
atU5-7 |
At4g02535 |
4 |
- |
1114629 |
1114528 |
102 |
1E-30 |
2-103, 93% |
|
|
atU5-8 |
At3g25445 |
3 |
- |
9227212 |
9227116 |
97 |
1E-20 |
5-101, 89% |
|
|
atU5-9 |
At1g79545 |
1 |
- |
29928543 |
29928447 |
97 |
1E-20 |
5-101, 89% |
|
|
atU5-10 |
At5g14547 |
5 |
- |
4690412 |
4690370 |
43 |
3E-12 |
24-67, 97% |
|
|
atU5-11 |
At5g54065 |
5 |
- |
21957066 |
21957023 |
44 |
2E-10 |
20-64, 95% |
|
|
atU5-12 |
At1g71355 |
1 |
+ |
26895255 |
26895298 |
44 |
2E-10 |
20-64, 95% |
|
|
atU5-13 |
At5g53745 |
5 |
- |
21829988 |
21829943 |
46 |
3E-09 |
24-70, 93% |
|
|
atU6.1* |
At3g14735 |
3 |
+ |
4951596 |
4951697 |
102 |
1E-51 |
1-102, 100% |
gi16516 |
|
atU6.26 |
At3g13855 |
3 |
+ |
4561111 |
4561212 |
102 |
2E-49 |
1-102, 99% |
gi16517 |
|
atU6.29 |
At5g46315 |
5 |
+ |
18804616 |
18804717 |
102 |
2E-49 |
1-102, 99% |
gi16518 |
|
atU6-2 |
At5g62995 |
5 |
+ |
25296825 |
25296926 |
102 |
1E-51 |
1-102, 100% |
|
|
atU6-3 |
At4g27595 |
4 |
+ |
13782215 |
13782316 |
102 |
1E-51 |
1-102, 100% |
|
|
atU6-4 |
At4g03375 |
4 |
- |
1483121 |
1483020 |
102 |
1E-51 |
1-102, 100% |
|
|
atU6-5 |
At4g33085 |
4 |
- |
15965258 |
15965158 |
101 |
8E-37 |
1-101, 94% |
|
|
atU6-6 |
At4g35225 |
4 |
+ |
16754836 |
16754931 |
96 |
1E-32 |
1-102, 93% |
|
|
atU6-7 |
At2g15532 |
2 |
+ |
6784793 |
6784869 |
77 |
7E-25 |
4-80, 93% |
|
|
atU6-8p |
At1g52605 |
1 |
+ |
19596398 |
19596476 |
96 |
2E-19 |
4-99, 87% |
|
|
atU6-9p |
At1g53465 |
1 |
- |
19960538 |
19960485 |
54 |
9E-09 |
21-74, 88% |
|
|
atU6-10p |
At3g45705 |
3 |
+ |
16792802 |
16792888 |
87 |
2E-06 |
1-46, 89%; 62-100, 89% |
|
|
atU6-11p |
At5g11085 |
5 |
- |
3522167 |
3522143 |
25 |
9E-06 |
1-25, 100% |
|
|
atU12* |
At1g61275 |
1 |
+ |
22606785 |
22606960 |
176 |
1E-95 |
1-176, 100% |
†gi22293600 |
|
atU6atac* |
At5g40395 |
5 |
- |
16183534 |
16183413 |
122 |
1E-63 |
1-122, 100% |
† |
|
atU6atac-2 |
At1g21395 |
1 |
- |
7491489 |
7491378 |
112 |
5E-20 |
1-65, 95%; 81-110, 93% |
|
|
atU4atac |
At4g16065 |
4 |
+ |
9096374 |
9096532 |
159 |
N/A |
N/A |
|
|
|
|||||||||
|
Chromosomal locations were determined by conducting BLAST searches against the Arabidopsis genome (Release 5.0). *The gene used for query in the BLAST search; †atU12 and atU6atac sequences, which were experimentally identified [28]. Their sequences were compiled manually from the cited paper. The GenBank gi numbers for the chromosome sequences used are as follows: chromosome 1, 42592260; chromosome 2, 30698031; chromosome 3, 30698537; chromosome 4, 30698542; chromosome 5, 30698605. |
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|
Wang and Brendel Genome Biology 2004 5:R102 doi:10.1186/gb-2004-5-12-r102 |
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