|
The DFCI Arabidopsis thaliana Gene Index (AtGI)
|
|
AtGI TC Report: |
|
EST IDs are linked to AtGI EST reports. ET# s are linked to
qcGene
reports. GB#s are linked to
GenBank
accessions.
|
>TC284366 TC3821 TC143677 TC160730 TC183400
TCTACCTCAATTTATATTATTTGCTTCAATCTTCTCTTTATCGCTCCACCAGATCCAAGTTCGCGAGATTTCAAGCTCTC
TAACAAAGTTCTTCACTTTTGCTCTCAAAGCTTTCATCTTTCATTCAACTACTTAAGCTCCAAGTATGGCAGGATCCGCA
CCGGAAGGAACACAATTTGATACGCGTCAGTTTGACCAGAGGCTGAATGAAGTTCTCGATGGACAGGATGAGTTCTTCAC
CTCATATGATGAGGTCCATGAGAGCTTTGATGCCATGGGTTTGCAAGAGAATCTTCTTAGGGGTATCTATGCTTACGGTT
TCGAAAAGCCTTCTGCTATTCAGCAAAGAGGAATTGTACCCTTTTGCAAGGGTCTTGATGTGATCCAGCAGGCACAGTCT
GGTACTGGAAAAACCGCCACTTTCTGCTCTGGTGTCTTGCAGCAGCTTGACTATGCCCTTCTCCAGTGCCAGGCTCTCGT
TTTGGCTCCCACCAGAGAGCTTGCTCAGCAGATTGAGAAGGTCATGCGTGCCCTTGGTGACTACCAAGGTGTCAAGGTTC
ATGCCTGTGTTGGTGGAACCAGTGTCCGTGAGGATCAGCGCATTCTCCAGGCTGGTGTTCATGTTGTCGTTGGAACTCCC
GGTCGTGTTTTTGACATGCTTAGAAGACAATCTCTCCGCCCTGACTGCATCAAGATGTTTGTCCTTGATGAAGCTGATGA
AATGCTCTCCCGTGGTTTCAAGGATCAGATCTATGACATATTCCAGCTTCTCCCACCAAAGATTCAGGTTGGAGTGTTCT
CTGCGACAATGCCTCCGGAAGCTTTGGAGATCACAAGAAAATTCATGAGCAAACCAGTGAGAATCTTGGTGAAACGTGAT
GAGCTCACACTTGAAGGTATCAAGCAATTCTACGTGAACGTGGAGAAAGAAGACTGGAAGCTTGAGACTCTCTGCGATCT
CTACGAGACTCTAGCCATCACTCAGAGTGTCATCTTTGTCAACACTCGTCGCAAGGTCGACTGGCTCACAGACAAAATGA
GAAGCCGTGACCACACAGTCTCAGCAACTCATGGAGACATGGACCAAAACACCAGAGACATCATCATGAGAGAGTTCAGG
TCTGGCTCGTCTCGTGTTCTAATCACAACCGATCTCTTGGCTCGTGGTATCGATGTGCAGCAAGTCTCTCTAGTCATAAA
CTTTGACCTCCCAACTCAGCCAGAGAATTACCTTCACCGTATCGGAAGAAGTGGAAGGTTCGGGAGAAAGGGTGTGGCGA
TTAACTTTGTGACTCTTGATGATCAGAGAATGCTGTTTGATATTCAGAAATTCTACAATGTGGTTGTTGAGGAGCTTCCC
TCAAACGTGGCTGATTTGCTGTGAAGAAGAAGAAGAAGAAGAAGAAGAAAGGTTGCTTGTTTCGCAAATTTCTTATTTGA
TTTTTGACCCGTCTCTCTCTCTCTGAATCATCGATACATCTTTTTCATTCTCTAGTATTCTTCATCAACTCTATCGAACA
TATATATGTCTCTTCTGACCATATTTCTTTTTTATCAAATGCAATATTTATTTCTTCTCTTGTATGATCCAAAAATCTTT
CGTAATTACAAGTCTATTCACAGCAATTCTAT
1=============================Open Reading Frames===========================1632
========= +1
======= ========================================================== ===== +2
========= ==================== ======== +3
================== -3
-2
====== ======= -1
============================================================= ESTScan(+)
================================================================= framefinder(+)
________________________________________________________________________________
1===================================TC284366================================1632
1 > 72 > < 90
2 > 71 > 76 > < 126
3 > 73 > < 134
4 > < 74 < 93
5 > 75 > < 135
6 > 77 > < 141
7 > < 78 < 133
8 > < 79 < 136
9 >
10 >
11 > 67 > 83 > < 137
12 > < 80 < 138
13 > 81 >
14 > 82 >
15 > 84 >
16 > < 85
17a > 86 >
.............................................. 17b >
18 > < 87
19 > < 88
20 > < 89
21 > < 91
22 >
23a > < 92
.............................................................< 23b
24 > < 94
25a > < 95
........................................................< 25b
26 > 96 >
27 > < 97
28 > < 98
29 > < 99
30 > < 100
31 > < 101
32 > < 102
33 > < 103
34 > < 104
35 > < 105
36 > < 106
37 > < 107
38 > < 108
39 > < 109
40 > < 110
41 > < 111
42 >
43 > < 112
44 > < 113
45 > < 114
46 > < 115
47 > < 116
48 > < 117
49 > < 118
50 > < 119
51 > < 120
52 > < 121
53 > < 122
54 > < 123
55 > < 124
56 > < 125
57 > < 127
58 >
59 > < 128
60 > < 129
61 > < 130
62 > < 131
63 > < 132
64 > < 139
65 >
66 >
68 > < 140
69 >
70 >
# Src EST Id GB# Clone/Protein left right Library/Protein name
1 I024 BP824457 BP824457 RAFL22-09-J23 1 397 RAFL19
2 I024 BP831751 BP831751 RAFL22-90-B05 1 352 RAFL19
3 I034 6641578 DR236240 1205753 1 476 CERES-AL46
4 I034 154812 DR236244 121912 1 483 CERES-148
5 I034 1973866 DR236246 406365 1 636 CERES-AN
6 I034 957955 DR236250 155645 1 489 CERES-148
7 I034 6640833 DR236273 1205008 1 457 CERES-AL46
8 I034 140563 DR236278 108656 1 508 CERES-148
9 ETG NP366488 AF386923 AAK62368 1 1632 Eukaryotic Initiation Factor 4A-2 [Arabidopsis thaliana]
10 I023 Ceres:3997 Ceres:3997 2 1578 full-length cDNA from Ceres, Inc.
11 I034 5744958 DR236237 1150756 2 254 CERES-AL46
12 I034 137793 DR236243 105799 2 531 CERES-148
13 I034 160423 DR236252 143037 2 482 CERES-148
14 I034 6640313 DR236255 1204488 2 445 CERES-AL46
15 I034 153581 DR236256 120648 2 477 CERES-148
16 I034 4511940 DR236258 1019880 2 427 CERES-148
17a I034 38797 DR236260 3997 2 366 CERES-148
17b I034 100605 DR370648 3997 937 1508 CERES-148
18 I034 11068383 DR236261 1347968 2 654 CERES-AN65
19 I034 1134935 DR236265 256310 2 512 CERES-148
20 I034 1135633 DR236268 257008 2 499 CERES-148
21 I034 4502621 DR236276 1014165 2 456 CERES-148
22 ETG NP506196 AY087965 AAM65512 2 1578 eukaryotic translation initiation factor 4A, putative [Arabidopsis thaliana]
23a I024 AV823120 AV823120 RAFL05-15-K12 3 667 RAFL5
23b I024 AV784041 AV784041 RAFL05-15-K12 1237 1565 RAFL5
24 I024 AV830075 AV830075 RAFL09-62-C10 3 604 RAFL9
25a I024 AV831311 AV831311 RAFL09-88-C02 3 487 RAFL9
25b I024 AV815819 AV815819 RAFL09-88-C02 1137 1540 RAFL9
26 I024 AV832205 AV832205 RAFL11-06-B10 3 609 RAFL11
27 I034 153693 DR236234 120762 4 530 CERES-148
28 I034 162375 DR236236 144544 4 500 CERES-149
29 I034 6631306 DR236239 1195481 4 356 CERES-AL45
30 I034 68961 DR236247 34777 4 322 CERES-149
31 I034 962811 DR236251 154327 4 509 CERES-148
32 I034 158724 DR236254 126414 4 517 CERES-148
33 I034 6631241 DR236257 1195416 4 475 CERES-AL45
34 I034 6912582 DR236264 1332812 4 423 CERES-AS12
35 I034 133637 DR236266 101513 4 411 CERES-149
36 I034 1105375 DR236267 250741 4 416 CERES-148
37 I034 955412 DR236269 151701 4 470 CERES-148
38 I034 6627507 DR236271 1191682 4 425 CERES-AL45
39 I034 6626205 DR236272 1190380 4 453 CERES-AL45
40 I034 5788769 DR236275 1159948 4 469 CERES-AL45
41 I034 955664 DR236277 151961 4 497 CERES-148
42 ETG NP503159 AF428462 AAL16231 4 1578 At1g54270/F20D21_52 [Arabidopsis thaliana]
43 I024 BP837130 BP837130 RAFL22-19-E13 5 385 RAFL19
44 I024 BP853143 BP853143 RAFL25-22-E21 5 377 RAFL21
45 I024 BP827947 BP827947 RAFL22-77-D20 7 375 RAFL19
46 I034 12844526 DR236238 1367432 7 386 CERES-AN65
47 I034 12826906 DR236270 1362078 7 608 CERES-AN65
48 I02A 79-E014993-035-003 CB264219 MPIZp2000M193Q 9 566 MPIZ-ADIS-035
49 I034 6624243 DR236274 1188418 9 460 CERES-AL45
50 I034 168219 DR236235 148264 14 515 CERES-148
51 I034 71755 DR236241 37605 14 438 CERES-148
52 I034 1081347 DR236279 231707 14 458 CERES-148
53 I024 BP860516 BP860516 RAFL25-44-G11 15 398 RAFL21
54 I034 1150138 DR236249 271513 15 511 CERES-148
55 I034 63604 DR236248 29303 16 467 CERES-148
56 I024 BP848676 BP848676 RAFL25-06-E11 17 422 RAFL21
57 I024 BP867583 BP867583 RAFL21-81-I19 17 426 RAFL21
58 ETG NP031529 X65053 CAA46189 25 1575 eukaryotic translation initiation factor 4A-2
59 I034 139579 DR236259 107660 40 530 CERES-148
60 I02A 59-E018437-019-009 CB254774 MPIZp768E159Q 48 725 MPIZ-ADIS-019
61 I034 131127 DR236245 98956 48 543 CERES-148
62 I024 BP826198 BP826198 RAFL22-71-C24 49 364 RAFL19
63 I008 M73N12STM BE529121 600038347R1 51 302 Arabidopsis developing seed
64 I034 6641515 DR236242 1205690 87 543 CERES-AL46
65 ETG NP036254 AC005287 AAD25605 146 1384 Eukaryotic Initiation Factor 4A-2
66 ETG NP800747 BT008504 AAP37863 146 1384 At1g54270 [Arabidopsis thaliana]
67 I006 AV563361 AV563361 SQ186a06F 322 884 Arabidopsis thaliana green siliques Columbia
68 I008 M68G12STM BE527373 600036244R1 323 533 Arabidopsis developing seed
69 I034 11070664 DR236253 1350249 337 1134 CERES-AN65
70 I034 11059955 DR236263 1339540 337 1024 CERES-AN65
71 I024 BP815471 BP815471 RAFL22-38-P15 396 769 RAFL19
72 I006 AV554415 AV554415 RZ90c07R 537 993 Arabidopsis thaliana roots Columbia
73 I02A 57-E011179-013-009 CB259380 MPIZp770B169Q 685 1246 MPIZ-ADIS-013
74 I008 179 T03976 B48TP 703 1038 AT-NHC
75 I003 AF162841 AF162841 AtGER9 753 1243 Arabidopsis thaliana germinating seeds
76 I008 20642 N65602 240A14T7 836 1158 Lambda-PRL2
77 I02A 75-E8975-008-017-E CB262063 MPIZp767E2017Q 837 1337 MPIZ-ADIS-008
78 I024 BP829598 BP829598 RAFL22-82-J02 843 1215 RAFL19
79 I024 BP837567 BP837567 RAFL22-21-C19 844 1215 RAFL19
80 I024 BP823044 BP823044 RAFL22-63-L20 848 1215 RAFL19
81 I02B 26K21 CD532321 859 1501 Arabidopsis Leaf Senescence Library
82 I025 007H11 BU636563 868 1343 Infected Arabidopsis Leaf
83 I008 12704 R30099 165F20T7 961 1205 Lambda-PRL2
84 I02B 28F15 CD532675 971 1382 Arabidopsis Leaf Senescence Library
85 I006 AV519141 AV519141 APD49d02F 980 1578 Arabidopsis thaliana aboveground organs two to six-week old
86 I034 13813997 DR383660 1204890 980 1518 CERES-AL46
87 I006 AV543613 AV543613 RZ203f03F 985 1563 Arabidopsis thaliana roots Columbia
88 I006 AV539737 AV539737 RZ139a02F 990 1579 Arabidopsis thaliana roots Columbia
89 I006 AV539901 AV539901 RZ141b12F 1003 1572 Arabidopsis thaliana roots Columbia
90 I006 AV543572 AV543572 RZ202h12F 1060 1579 Arabidopsis thaliana roots Columbia
91 I006 AV559498 AV559498 SQ118e02F 1060 1576 Arabidopsis thaliana green siliques Columbia
92 I006 AV539896 AV539896 RZ141b06F 1070 1578 Arabidopsis thaliana roots Columbia
93 I006 AV564007 AV564007 SQ197d05F 1093 1578 Arabidopsis thaliana green siliques Columbia
94 I006 AV560535 AV560535 SQ136c08F 1095 1578 Arabidopsis thaliana green siliques Columbia
95 I006 AV562307 AV562307 SQ167h09F 1095 1573 Arabidopsis thaliana green siliques Columbia
96 I008 33056 AA721913 117F17T7 1117 1517 Lambda-PRL2
97 I024 BP617231 BP617231 RAFL16-23-B16 1121 1576 RAFL16
98 I006 AV560156 AV560156 SQ130b03F 1126 1578 Arabidopsis thaliana green siliques Columbia
99 I024 BP593442 BP593442 RAFL15-22-C13 1126 1565 RAFL15
100 I024 BP641337 BP641337 RAFL19-54-O09 1130 1575 RAFL19
101 I024 BP592001 BP592001 RAFL15-16-L11 1134 1565 RAFL15
102 I024 BP633882 BP633882 RAFL17-32-G06 1140 1577 RAFL17
103 I024 BP585577 BP585577 RAFL15-03-B10 1143 1577 RAFL15
104 I024 BP656313 BP656313 RAFL19-25-I17 1146 1565 RAFL19
105 I024 BP620889 BP620889 RAFL16-39-C19 1150 1565 RAFL16
106 I024 AV811421 AV811421 RAFL09-68-A17 1152 1537 RAFL9
107 I024 BP618083 BP618083 RAFL16-26-M22 1155 1565 RAFL16
108 I024 BP597328 BP597328 RAFL15-38-N17 1156 1565 RAFL15
109 I024 BP664152 BP664152 RAFL21-50-L05 1156 1577 RAFL21
110 I024 BP640789 BP640789 RAFL19-52-P22 1159 1565 RAFL19
111 I024 BP602723 BP602723 RAFL16-55-L20 1161 1565 RAFL16
112 I024 AV815261 AV815261 RAFL09-86-A12 1166 1577 RAFL9
113 I024 BP618011 BP618011 RAFL16-26-I04 1166 1576 RAFL16
114 I024 BP669850 BP669850 RAFL21-32-O09 1167 1575 RAFL21
115 I024 AV809623 AV809623 RAFL09-60-G06 1169 1577 RAFL9
116 I024 BP646754 BP646754 RAFL19-73-D18 1170 1575 RAFL19
117 I024 BP646851 BP646851 RAFL19-73-I08 1171 1575 RAFL19
118 I024 BP646707 BP646707 RAFL19-73-B05 1173 1565 RAFL19
119 I024 AV812109 AV812109 RAFL09-71-E14 1177 1565 RAFL9
120 I024 BP593566 BP593566 RAFL15-22-K10 1179 1624 RAFL15
121 I024 BP651688 BP651688 RAFL19-90-D01 1179 1575 RAFL19
122 I024 BP599721 BP599721 RAFL16-08-G13 1180 1577 RAFL16
123 I024 BP650325 BP650325 RAFL19-84-A18 1181 1573 RAFL19
124 I006 AV532824 AV532824 FB050g03F 1183 1577 Arabidopsis thaliana flower buds Columbia
125 I006 AV559094 AV559094 SQ111b03F 1190 1573 Arabidopsis thaliana green siliques Columbia
126 I024 BP646361 BP646361 RAFL19-71-N22 1201 1581 RAFL19
127 I024 BP622632 BP622632 RAFL17-03-O11 1203 1565 RAFL17
128 I024 BP631119 BP631119 RAFL17-22-H04 1203 1565 RAFL17
129 I024 BP655049 BP655049 RAFL19-19-M23 1204 1565 RAFL19
130 I024 BP654784 BP654784 RAFL19-18-N09 1213 1565 RAFL19
131 I024 BP587826 BP587826 RAFL15-44-A17 1215 1624 RAFL15
132 I024 BP628868 BP628868 RAFL17-14-D15 1218 1577 RAFL17
133 I006 AV566405 AV566405 SQ242g08F 1265 1632 Arabidopsis thaliana green siliques Columbia
134 I006 AV565461 AV565461 SQ224e08F 1307 1618 Arabidopsis thaliana green siliques Columbia
135 I006 AV532058 AV532058 FB034h09F 1314 1578 Arabidopsis thaliana flower buds Columbia
136 I006 AV562169 AV562169 SQ165b10F 1316 1573 Arabidopsis thaliana green siliques Columbia
137 I006 AV563396 AV563396 SQ186f05F 1321 1624 Arabidopsis thaliana green siliques Columbia
138 I024 BP590493 BP590493 RAFL15-11-B04 1326 1565 RAFL15
139 I006 AV565386 AV565386 SQ223a09F 1345 1612 Arabidopsis thaliana green siliques Columbia
140 I00E ATTS0481 Z17997 TASG114 1352 1578 AC16H
141 I02B 27F23 CD530065 1411 1623 Arabidopsis Leaf Senescence Library
Sequence source codes:
I025 Aalborg Universitet, Institut for bioteknologi
I00E Laboratoire de Biologie Moleculaire des Plantes CNRS, Gigot Claude / L512
I008 Michigan State University, Dept. of Biochemistry & Molecular Biology
I006 Kazusa DNA Research Institute, The First Laboratory for Plant Gene Research
I003 Hokkaido University, Division of Applied Bioscience, Graduate School of Agriculture
I034 Ceres Inc,
I023 Inc., Ceres
I02B Cornell University, Department of Horticulture
I024 RIKEN Genomic Sciences Center, Plant Functional Genomics Research Group
I02A Max Planck Institute for Plant Breeding Research, ADIS DNA core facility at MPIZ
ETGB Expressed Transcripts from GenBank
TC sequence strand: coding strand |
Evidence for coding strand | Evidence for reverse complement |
Inconclusive evidence |
| ESTs | 5' ESTs | (used as +) | 62 | (used as -) | 3 |
(5'/3' source not known) |
|---|
| 3' ESTs | (used as -) |
57 | (used as +) | 5 |
| total | 119 |
8 | 11 | | Expressed transcripts | 5 | - |   |
|---|
| Predicted genes | 1 | - |
|---|
| Protein hits | 5 | - |
|---|
| Trimmed polyA/T | 1 | - |
|---|
Tentative Annotation: UP|IF4A2_ARATH (P41377) Eukaryotic initiation factor 4A-2 (ATP-dependent RNA helicase eIF4A-2) (eIF-4A-2) , complete
0 Clone links to other TCs:
GO annotation
| GO id | GO term | EC# | Type | GOpep link | %sim | %cov | | GO:0005524 | ATP binding | - | M | FB|FBgn0001942 | 85 | 93 |
| GO:0000339 | RNA cap binding | - | M | FB|FBgn0001942 | 85 | 93 |
| GO:0008026 | ATP-dependent helicase activity | - | M | TAIR|gene:3434200 | 79 | 78 |
| GO:0003743 | translation initiation factor activity | - | M | GeneDB_Pfalciparum|PFD1070w | 79 | 70 |
| GO:0003729 | mRNA binding | - | M | GeneDB_Pfalciparum|PF14_0655 | 85 | 81 |
| GO:0003724 | RNA helicase activity | - | M | FB|FBgn0001942 | 85 | 93 |
| GO:0004004 | ATP-dependent RNA helicase activity | - | M | GeneDB_Pfalciparum|PFD1070w | 79 | 70 |
| GO:0017116 | single-stranded DNA-dependent ATP-dependent DNA helicase activity | - | M | FB|FBgn0001942 | 85 | 93 |
| GO:0008372 | cellular component unknown | - | C | TAIR|gene:3434200 | 79 | 78 |
| GO:0005829 | cytosol | - | C | FB|FBgn0001942 | 85 | 93 |
| GO:0005634 | nucleus | - | C | FB|FBgn0001942 | 85 | 93 |
| GO:0009505 | cell wall (sensu Magnoliophyta) | - | C | TAIR|gene:2030284 | 96 | 93 |
| GO:0016281 | eukaryotic translation initiation factor 4F complex | - | C | GeneDB_Pfalciparum|PFD1070w | 79 | 70 |
| GO:0000381 | regulation of alternative nuclear mRNA splicing, via spliceosome | - | B | FB|FBgn0001942 | 85 | 93 |
| GO:0006268 | DNA unwinding during replication | - | B | FB|FBgn0001942 | 85 | 93 |
| GO:0000004 | biological process unknown | - | B | TAIR|gene:2030284 | 96 | 93 |
| GO:0006441 | binding to mRNA cap | - | B | GeneDB_Pfalciparum|PF14_0655 | 85 | 81 |
| GO:0007446 | imaginal disc growth | - | B | FB|FBgn0001942 | 85 | 93 |
| GO:0006413 | translational initiation | - | B | FB|FBgn0001942 | 85 | 93 |
| GO:0006446 | regulation of translational initiation | - | B | GeneDB_Pfalciparum|PFD1070w | 79 | 70 |
| GO:0002168 | larval development (sensu Insecta) | - | B | FB|FBgn0001942 | 85 | 93 |
Linking to Metabolic Pathways in KEGG
Maps to :
| Genome | Chromosome | End5 | End3 | Score | Show genomic alignment with: |
|---|
| Arabidopsis genome |
chr1 |
20,263,486 |
20,265,933 |
1612 |
 |
  |
  |
| Rice genome |
chr6 |
29,459,144 |
29,461,187 |
610 |
 |
  |
  |
| Rice genome |
chr2 |
2,558,783 |
2,560,983 |
580 |
 |
  |
  |
| Mouse genome |
chr11 |
69,483,828 |
69,485,625 |
101 |
 |
 |
 |
| Rhesus macaque genome |
chr17 |
39,743,301 |
39,744,928 |
58 |
 |
 |
 |
| Chimp genome |
chr17 |
2,582,235 |
2,583,864 |
42 |
 |
 |
 |
Comments and suggestions : Contact Us
| Acknowledgements |
 |
The Gene Index Project is supported in part by funding from the US National Science Foundation through grant #DBI-0552416. |
|