| 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. | |
>TC280806 TC133801 TC162012 TC184079 GAGGTCGGAGCTAAATTTTGAGAGTAAAATAAAAAAGCAAAAGAGAGAAATTGAAAAAAAAAGAAAGAAAAATAATCCTC TCTTGTTTCGGCTAGGGTTTCGTTTTTGTTTCATCGATAAACTCAAAGGAGATGGATTCAACAAATGGTAACGGAGCTGA TCTTGAATCAGCAAATGGGGCAAACGGGAGTGGGGTTACTGAGGCATTACCACCTCCTCCACCAGTTATACCTCCAAATG TGGAACCAGTTCGTGTTAAAACTGAACTTGCTGAGAAGAAGGGGCCAGTTCGAGTTCCTATGGCTCGAAAAGGATTTGGA ACAAGGGGCCAAAAGATCCCCTTGTTAACAAATCATTTCAAAGTCGATGTGGCTAATCTTCAGGGTCATTTCTTCCACTA CAGTGTGGCTCTATTCTATGATGATGGTCGTCCTGTTGAACAAAAGGGTGTTGGAAGAAAAATCCTTGACAAGGTGCATC AGACTTACCATTCTGATCTGGATGGTAAAGAGTTTGCTTATGACGGTGAGAAGACGTTGTTTACATATGGAGCTTTGCCT AGTAACAAGATGGATTTTTCTGTGGTGCTTGAGGAAGTATCTGCTACAAGGGCTAATGGAAACGGAAGCCCCAATGGGAA TGAAAGTCCAAGTGATGGTGATAGGAAAAGACTGCGTAGGCCTAACCGGTCCAAAAACTTTAGAGTGGAGATCAGCTATG CGGCCAAAATTCCTCTTCAAGCTCTTGCTAATGCAATGCGGGGACAAGAATCAGAGAATTCCCAGGAGGCAATACGGGTT CTTGATATCATATTGAGGCAACATGCTGCTAGACAAGGTTGCTTGCTTGTTCGACAGTCTTTTTTCCACAATGATCCAAC CAACTGTGAACCAGTTGGTGGTAACATCTTAGGATGTAGGGGATTTCACTCCAGTTTCAGAACAACGCAGGGTGGCATGT CACTTAATATGGATGTTACAACCACCATGATCATCAAGCCTGGTCCAGTGGTTGATTTCCTAATTGCTAACCAAAATGCT AGGGACCCTTATTCGATTGACTGGTCTAAGGCTAAACGAACCCTTAAGAACCTAAGGGTAAAGGTCAGCCCCTCAGGCCA AGAATTCAAGATAACCGGATTGAGTGACAAGCCTTGCAGGGAACAAACGTTTGAATTGAAGAAAAGGAACCCAAATGAAA ATGGAGAGTTCGAAACTACTGAAGTTACAGTTGCTGACTACTTCCGCGATACAAGGCATATTGATTTGCAATATTCTGCG GATTTGCCTTGCATCAATGTTGGGAAGCCAAAGCGACCCACTTACATTCCTCTCGAGCTCTGCGCGTTGGTTCCACTTCA GAGGTACACAAAAGCACTTACCACGTTCCAAAGATCTGCCCTTGTTGAGAAATCCAGACAGAAACCCCAAGAGAGGATGA CTGTTCTGTCCAAAGCTCTGAAAGTTAGCAACTATGATGCGGAACCACTCCTGCGATCCTGTGGCATTTCGATCAGCTCC AACTTTACTCAGGTGGAGGGTCGTGTTCTACCAGCTCCCAAGCTGAAAATGGGATGTGGATCTGAAACCTTTCCCAGAAA TGGTCGCTGGAACTTCAACAACAAGGAATTTGTTGAGCCCACCAAAATTCAACGATGGGTTGTTGTCAATTTCTCTGCTC GCTGTAATGTACGTCAAGTTGTTGATGATCTGATAAAAATTGGAGGATCAAAAGGAATTGAAATTGCTTCTCCCTTTCAA GTGTTTGAGGAGGGTAATCAATTCCGCCGTGCTCCTCCTATGATTCGTGTTGAGAACATGTTTAAGGACATCCAATCGAA ACTCCCTGGTGTCCCACAATTCATACTATGTGTGCTCCCTGACAAAAAGAACAGTGATCTCTATGGTCCATGGAAGAAAA AAAACTTAACTGAATTTGGCATTGTTACTCAATGCATGGCTCCAACGCGGCAACCTAATGATCAGTATCTTACTAACTTA CTTCTGAAGATTAATGCAAAGCTTGGAGGCCTGAACTCAATGTTAAGTGTAGAGCGTACACCTGCGTTCACTGTGATTTC TAAGGTTCCAACCATTATCCTTGGGATGGATGTTTCACATGGATCTCCTGGACAGTCTGATGTCCCGTCCATCGCTGCTG TGGTGAGTTCTAGGGAGTGGCCACTGATATCCAAATATAGAGCATCTGTTCGGACACAGCCTTCTAAGGCTGAGATGATT GAGTCCCTTGTCAAGAAAAATGGAACTGAAGACGATGGCATTATCAAGGAGTTGCTGGTAGATTTCTACACCAGCTCGAA TAAGAGAAAACCAGAGCATATCATAATTTTCAGGGATGGTGTGAGTGAATCTCAATTCAATCAGGTTCTGAATATTGAAC TTGATCAGATCATCGAGGCTTGCAAGCTCTTAGACGCAAATTGGAACCCAAAGTTCCTTTTGTTGGTGGCTCAAAAGAAT CATCATACCAAGTTCTTCCAGCCAACGTCTCCTGAAAATGTTCCTCCAGGGACAATCATTGACAACAAAATATGTCACCC AAAGAACAATGATTTCTACCTCTGTGCTCACGCTGGAATGATTGGAACTACCCGCCCAACTCACTACCACGTCCTGTATG ATGAGATTGGTTTTTCAGCTGACGAACTTCAGGAACTTGTCCACTCGCTCTCCTATGTGTACCAAAGAAGCACCAGTGCC ATTTCTGTTGTTGCGCCGATCTGCTATGCTCACTTGGCAGCTGCTCAGCTTGGGACGTTCATGAAGTTTGAAGATCAGTC TGAGACATCATCAAGCCATGGTGGTATCACAGCTCCAGGACCAATCTCTGTTGCACAGCTCCCAAGACTCAAAGACAACG TCGCCAACTCCATGTTCTTCTGTTAAATGAGCAGCCCTACTTGGCTCAGTAAGTAAGTAGTAGTTCAATAGGCTATCTGA CTTTCAGCTTAGGATCTCTCTCGGCCTTGAAGCCAGGCATCGACACTAAGGCTTGGAATGTTTTTTGTGACTATTATCGC CAGCCTTGTTTGCCTGTTGGGGTTTGAATATGCTTTTGTCCCCCTTAACAATTCGGTTGTTTAATTAAAGACTTATTGTA GTGAATATCTAAGTTCAGGAAGTTACCCTTTTGTCG
1=============================Open Reading Frames===========================3156
===== ========= ======= == ==== +1
==== +2
======================================================================= +3
==== ======== -3
==== ===== -2
=== -1
======================================================================= ESTScan(+)
======================================================================= framefinder(+)
________________________________________________________________________________
1===================================TC280806================================31561a>16> <19.....................................................................<1b2>17> <203>18> <214> <225>23>6> <247>8> <259> <2610> <2711> <2812> <2913> <3014>15> <31<32<3334> <35<3637> <38<39# Src EST Id GB# Clone/Protein left right Library/Protein name1a I024 AV827605 AV827605 RAFL09-17-H15 1 601 RAFL9 1b I024 AV798767 AV798767 RAFL09-17-H15 2725 3156 RAFL9 2 I024 BP821303 BP821303 RAFL22-57-I15 2 393 RAFL19 3 I024 BP822027 BP822027 RAFL22-60-A07 2 386 RAFL19 4 I024 BP823321 BP823321 RAFL22-64-L02 2 385 RAFL19 5 I024 BP831223 BP831223 RAFL22-88-F09 2 413 RAFL19 6 I024 BP836492 BP836492 RAFL22-16-J15 2 392 RAFL19 7 ETG NP365965 AY035081 AAK59586 2 3156 putative post-transcriptional gene silencing protein [Arabidopsis thaliana] 8 I024 BP862456 BP862456 RAFL21-63-E16 6 382 RAFL21 9 I024 BP859416 BP859416 RAFL25-40-J19 7 403 RAFL21 10 I02A 54-E018427-019-008 CB255015 MPIZp768K138Q 10 644 MPIZ-ADIS-019 11 I006 AV529113 AV529113 APZL27f05R 20 554 Arabidopsis thaliana aboveground organs two to six-week old 12 I006 AV529826 AV529826 APZL49a09R 26 325 Arabidopsis thaliana aboveground organs two to six-week old 13 I006 AV529680 AV529680 APZL43g03R 29 554 Arabidopsis thaliana aboveground organs two to six-week old 14 ETG NP389509 AY051033 AAK93710 132 2937 putative post-transcriptional gene silencing protein [Arabidopsis thaliana] 15 ETG NP455315 AC005623 AAC77862 132 2906 Argonaute (AGO1)-like protein [Arabidopsis thaliana] 16 I008 M75O17STM BE529725 600038972R1 1809 2068 Arabidopsis developing seed 17 I008 M60B11STM BE525238 M60B11 1913 2269 Arabidopsis developing seed 18 I008 3589 T21581 95A9T7 2056 2406 Lambda-PRL2 19 I006 AV524024 AV524024 APZL49a09F 2495 3105 Arabidopsis thaliana aboveground organs two to six-week old 20 I006 AV523440 AV523440 APZL27f05F 2509 3052 Arabidopsis thaliana aboveground organs two to six-week old 21 I006 AV523915 AV523915 APZL43g03F 2580 3063 Arabidopsis thaliana aboveground organs two to six-week old 22 I006 AV523023 AV523023 APZL13c04F 2626 3087 Arabidopsis thaliana aboveground organs two to six-week old 23 I008 M79F16STM BE528457 600037559R1 2662 2901 Arabidopsis developing seed 24 I006 AV546094 AV546094 RZL08d06F 2678 3155 Arabidopsis thaliana roots Columbia 25 I024 BP641212 BP641212 RAFL19-54-H10 2711 3156 RAFL19 26 I024 BP638966 BP638966 RAFL19-45-J17 2728 3121 RAFL19 27 I024 AV795556 AV795556 RAFL08-18-C06 2730 3155 RAFL8 28 I024 BP793414 BP793414 RAFL07-56-D06 2735 3139 RAFL7 29 I024 BP793913 BP793913 RAFL07-58-D11 2739 3155 RAFL7 30 I024 BP789382 BP789382 RAFL07-38-I23 2744 3155 RAFL7 31 I024 BP784806 BP784806 RAFL07-92-D21 2745 3156 RAFL7 32 I024 BP790393 BP790393 RAFL07-43-B12 2745 3155 RAFL7 33 I024 BP779380 BP779380 RAFL07-67-M24 2746 3155 RAFL7 34 I008 28031 AA395629 95A9XP 2751 3144 Lambda-PRL2 35 I024 AV814348 AV814348 RAFL09-82-K09 2755 3156 RAFL9 36 I024 AV803019 AV803019 RAFL09-34-A21 2763 3155 RAFL9 37 I034 12824360 DR368741 1360122 2797 3139 CERES-AN65 38 I006 AV543687 AV543687 RZ204h08F 2819 3155 Arabidopsis thaliana roots Columbia 39 I006 AV547418 AV547418 RZL31e12F 2856 3155 Arabidopsis thaliana roots Columbia Sequence source codes: I008 Michigan State University, Dept. of Biochemistry & Molecular Biology I006 Kazusa DNA Research Institute, The First Laboratory for Plant Gene Research I034 Ceres Inc, 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 +) | 15 | (used as -) | - | (5'/3' source not known) |
| 3' ESTs | (used as -) | 19 | (used as +) | 1 | ||
| total | 34 | 1 | 2 | |||
| Expressed transcripts | 2 | - | ||||
| Predicted genes | 1 | - | ||||
| Protein hits | 4 | - | ||||
| Trimmed polyA/T | - | - | ||||
Tentative Annotation:
RF|NP_565633.1|18401305|NM_128262 AGO4 (ARGONAUTE 4) {Arabidopsis thaliana} (exp=-1; wgp=0; cg=0), complete 0
RF|NP_565633.1|18401305|NM_128262 AGO4 (ARGONAUTE 4) {Arabidopsis thaliana} (exp=-1; wgp=0; cg=0), complete 0
GO annotation
| GO id | GO term | EC# | Type | GOpep link | %sim | %cov |
| GO:0005554 | molecular function unknown | - | M | TIGR_Ath1|At5g21030 | 85 | 63 |
| GO:0008372 | cellular component unknown | - | C | TIGR_Ath1|At5g21030 | 85 | 63 |
| GO:0006342 | chromatin silencing | - | B | TAIR|gene:1005837052 | 100 | 100 |
| GO:0000004 | biological process unknown | - | B | TIGR_Ath1|At5g21030 | 85 | 63 |
| Genome | Chromosome | End5 | End3 | Score | Show genomic alignment with: | |||
|---|---|---|---|---|---|---|---|---|
| Arabidopsis genome | chr2 | 11,543,623 | 11,549,432 | 3063 |  |
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| Acknowledgements | |
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The Gene Index Project is supported in part by funding from the US National Science Foundation through grant #DBI-0552416. |
 
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