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The DFCI Arabidopsis thaliana Gene Index (AtGI)
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AtGI TC Report: |
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EST IDs are linked to AtGI EST reports. ET# s are linked to
qcGene
reports. GB#s are linked to
GenBank
accessions.
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>TC281717 TC136003 TC155405 TC177339
CCCCCCAATTTTATCCCTCTTTACTCTTCTTGATAATCGGAGGAAACTAAAAAAGGAAAAAAAAAAATCTAAATAAGAAT
AAAATTCCTAAAAAATAAATAAATCAAAAATTGTGAAGAAACAAATCCTCGAGTCATGTTGTTTACAGAAAATCTCTTTC
TCACTTAAAACCCTTACAGAAACAAATCATCGAATCTTTGTTTTTTTAGAATCAGTGATTTTGTTTCCTTTCACGAGACG
AAAATAACAAATCGTCTTGTAAAAAGTAAACTCATAATCATGGCGGCGGCGGTTGCCACAGGTGTTGCACCGGCGACAAT
GGTTGATCAAGTTCCCAGTCCGACGGCGCAGACTTCGGTTCAGGTTCCGGTTTCAATACCTCTTCCATCCCCGGTCGTGG
TAGCCGATCAAACCCACCCGAACTCGTCGCTCTATGCCGGTGATCTGGACCCGAAAGTTACTGAAGCACATCTATTTGAT
TTGTTCAAACATGTTGCTAATGTCGTCTCGGTAAGAGTTTGCCGCGATCAGAATCGTCGATCTTTGGGATATGCCTACAT
CAATTTCAGTAACCCTAACGATGCTTACCGTGCAATGGAGGCCTTGAACTACACTCCCCTCTTTGATAGGCCCATTCGGA
TCATGCTTTCGAACCGTGACCCAAGCACGCGATTGAGCGGCAAAGGAAACATTTTCATCAAAAACCTTGACGCTTCAATC
GACAACAAGGCCTTGTTCGAGACGTTTTCAAGTTTTGGAACCATCCTCTCATGCAAAGTTGCAATGGACGTGACTGGCCG
GTCCAAGGGGTATGGATTTGTCCAGTTCGAGAAGGAGGAATCGGCTCAAGCCGCAATTGACAAGCTAAACGGAATGTTAA
TGAACGACAAGCAAGTTTTTGTGGGACACTTCATCAGACGTCAAGAGCGTGCTCGTGATGAAAACACCCCTACACCGCGT
TTCACTAACGTGTACGTCAAGAATCTCCCCAAGGAGATTGGTGAGGACGAGCTACGAAAAACGTTTGGTAAATTTGGAGT
GATATCGAGCGCAGTTGTAATGAGGGACCAGAGCGGAAACTCGAGGTGTTTCGGGTTTGTGAATTTTGAGTGCACTGAAG
CAGCGGCTTCGGCGGTTGAGAAGATGAATGGAATTAGCTTAGGGGATGATGTGTTGTACGTTGGGAGGGCGCAAAAGAAG
TCTGAGAGAGAGGAAGAGCTAAGAAGGAAGTTTGAGCAAGAGAGGATAAACCGGTTTGAGAAATCTCAAGGAGCGAACCT
GTATTTGAAGAATCTTGATGATAGTGTTGATGATGAGAAACTCAAGGAGATGTTCTCTGAGTATGGAAATGTGACATCCT
CCAAGGTTATGCTTAATCCACAAGGAATGAGCAGAGGATTTGGTTTTGTTGCTTATTCCAATCCTGAAGAAGCTTTAAGA
GCCCTGAGTGAAATGAATGGGAAGATGATCGGAAGAAAACCTCTATACATAGCTCTTGCGCAGCGCAAAGAAGATAGACG
AGCACACTTACAGGCGTTGTTTTCACAGATTAGAGCACCAGGGCCAATGTCAGGGTTCCATCACCCGCCAGGTGGACCAA
TGCCCGGTCCACCTCAACACATGTACGTAGGCCAAAACGGAGCAAGTATGGTCCCGTCCCAGCCCATTGGATATGGATTC
CAGCCTCAGTTCATGCCCGGGATGCGTCCAGGTTCTGGCCCGGGCAACTTCATCGTGCCTTATCCGCTTCAAAGACAACC
TCAGACCGGTCCTCGTATGGGATTCAGGCGTGGTGCTACTAACGTGCAACAACACATCCAACAACAACAACTTATGCACC
GTAACCCGTCCCCGGGAATGAGATATATGAACGGTGCGAGTAACGGGAGGAACGGAATGGATTCGAGTGTTCCTCAAGGA
ATCTTACCTCCTATCATTCCTTTGCCAATAGATGCTTCTTCGATCTCTCACCAGAAAGCTCCTCTCCTTCCAATCTCTAA
GCTCACTTCTTCCTTAGCTTCTGCTAGTCCAGCTGATCGCACTCGGATGCTTGGAGAACAACTGTACCCACTTGTGGAAA
GGCACGAACCACTTCACGTGGCTAAAGTCACAGGAATGTTGTTGGAGATGGATCAAGCTGAGATCTTGCACCTGATGGAG
TCACCAGAGGCACTCAAGTCTAAAGTATCCGAGGCTTTGGATGTTCTCAGGCTATCTGTTGATCCAACTGATCATGATCT
TGGTTTCTCTACCACCGACTGAAATTTGCAATGCGTTTGCTCAACTCTGTTTTCTTCTTTTAGTTTTGATATCGACTCCT
TTTCTTTTCTTTTTTGGGTTTTAGTCTTCCTTTACTATTTTAGCAGTTTTTTTTTGTTTACTTAGTTTATGGTTTTTGTG
TCTTTAACTTAGTTTATGGTGTTTTTCTTTTTCTTTGGACAATGATGATTTCTTAATAATCTGAGTAGACTTCTTTTT
1=============================Open Reading Frames==========================2478
================================================================ +1
==== ====== ===== +2
+3
==== -3
===== -2
-1
================================================================ ESTScan(+)
================================================================ framefinder(+)
_______________________________________________________________________________
1==================================TC281717================================2478
1a > 6 >
............................................................ 1b >
2a > 7 >
..................................................................< 2b
3 >
4 >
5 >
# Src EST Id GB# Clone/Protein left right Library/Protein name
1a I034 4699300 DR358236 1111980 1 724 CERES-AL6
1b I034 13100697 DR383117 1111980 1855 2442 CERES-AL6
2a I024 AV825682 AV825682 RAFL07-12-L18 7 620 RAFL7
2b I024 AV791951 AV791951 RAFL07-12-L18 2049 2475 RAFL7
3 ETG NP391882 AY054490 AAK96681 7 2475 Strong similarity to poly(A)-binding protein (PABP5) [Arabidopsis thaliana]
4 ETG NP233348 AF293840 AAG02117 265 2478 poly(A) binding protein
5 ETG NP043153 Y12227 CAA72907 280 2262 polyA binding protein PAB3
6 ETG NP627635 BT000105 AAN15424 1130 2292 Strong similarity to poly(A)-binding protein (PABP5) [Arabidopsis thaliana]
7 I034 13104883 DR381774 253703 1927 2453 CERES-148
Sequence source codes:
I034 Ceres Inc,
I024 RIKEN Genomic Sciences Center, Plant Functional Genomics Research Group
ETGB Expressed Transcripts from GenBank
TC sequence strand: coding strand
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Evidence for coding strand | Evidence for reverse complement |
Inconclusive evidence |
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| ESTs | 5' ESTs | (used as +) | 2 | (used as -) | - |
(5'/3' source not known) |
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| 3' ESTs | (used as -) |
1 | (used as +) | 2 |
| total | 3 |
2 | - |
| Expressed transcripts | 3 | - | |
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| Predicted genes | 1 | - |
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| Protein hits | 5 | - |
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| Trimmed polyA/T | - | - |
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Tentative Annotation:
UP|PABP3_ARATH (O64380) Polyadenylate-binding protein 3 (Poly(A)-binding protein 3) (PABP 3), complete
0
GO annotation
| GO id | GO term | EC# | Type | GOpep link | %sim | %cov |
| GO:0008143 | poly(A) binding | - | M | TAIR|gene:1944658 | 88 | 83 |
| GO:0003743 | translation initiation factor activity | - | M | TAIR|gene:2009035 | 81 | 54 |
| GO:0003723 | RNA binding | - | M | TAIR|gene:2009035 | 81 | 54 |
| GO:0012505 | endomembrane system | - | C | TAIR|gene:2012160 | 81 | 62 |
| GO:0009507 | chloroplast | - | C | TAIR|gene:2058572 | 79 | 51 |
| GO:0006413 | translational initiation | - | B | TAIR|gene:1944658 | 88 | 83 |
| GO:0000289 | poly(A) tail shortening | - | B | TAIR|gene:1944658 | 88 | 83 |
Maps to :
| Genome | Chromosome | End5 | End3 | Score | Show genomic alignment with: |
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| Arabidopsis genome |
chr1 |
8,055,309 |
8,059,004 |
2444 |
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Comments and suggestions : Contact Us
| 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. |
