The Gene Index Project

**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.

>TC280751 TC128552 TC163026 TC184807
GGACGGCTACACACCATTTTTGTTTAGATTCGTAATCCTCCTCAAGCATCTCCTTCGCAAATCTCCATCTCCATCTCCAT
CTTCTGAATTCAGGTTCTTGTTGCTTACGCTTCCAGCTAAAAAGATGACGTCTCGTTTTTTCACTCAGGTTGGAAGTGAA
AGTGAAGATGAAAGTGATTATGAGGTAGAGGTTAATGAGGTTCAGAATGATGACGTCAATAACCGTTACCTTCAAAGTGG
TAGTGAGGATGATGATGATACTGATACGAAACGTGTGGTTAAGCCTGCTAAGGATAAACGTTTTGAGGAGATGACCTACA
CTGTTGATCAGATGAAGAATGCTATGAAGATCAATGATTGGGTCAGCCTTCAAGAAAACTTTGATAAGGTTAACAAACAG
CTTGAGAAGGTTATGAGGATTACTGAGGCTGTGAAGCCTCCTACCTTGTATATCAAGACGCTTGTTATGTTGGAGGATTT
CTTGAATGAAGCTCTTGCCAATAAGGAAGCCAAGAAGAAGATGAGTACTAGTAACTCCAAGGCTTTGAACTCAATGAAAC
AGAAATTGAAGAAGAACAATAAGTTGTACGAAGACGATATCAACAAGTATCGTGAGGCTCCAGAAGTTGAGGAAGAGAAA
CAACCTGAAGATGATGATGATGATGACGATGATGATGATGAGGTTGAAGATGATGATGATTCTTCCATCGACGGACCTAC
CGTAGATCCTGGGTCCGATGTGGATGAACCTACTGATAATCTCACTTGGGAGAAGATGCTGAGCAAAAAAGATAAGCTTT
TGGAGAAGCTAATGAATAAAGATCCTAAAGAGATCACTTGGGACTGGGTCAACAAGAAGTTCAAGGAAATTGTGGCTGCT
CGTGGAAAAAAGGGCACTGCTCGATTTGAGCTAGTTGATCAGCTTACGCACTTGACAAAGATTGCCAAGACTCCTGCACA
GAAGCTTGAAATCTTGTTTAGCGTTATTTCGGCTCAGTTTGATGTGAATCCAGGTCTCAGCGGGCACATGCCTATCAATG
TCTGGAAGAAATGCGTGCTTAACATGCTCACCATACTGGACATTCTCGTCAAGTACAGTAACATTGTTGTGGATGACACA
GTTGAGCCTGATGAGAACGAAACTTCAAAGCCAACAGATTATGATGGAAAAATTCGGGTCTGGGGAAATTTGGTTGCATT
CTTGGAGAGGGTTGACACTGAGTTTTTCAAGAGTTTGCAATGCATTGATCCTCACACCCGTGAGTATGTTGAGAGGCTAA
GGGATGAGCCCATGTTCTTGGCCCTTGCTCAGAACATCCAGGACTACTTTGAGCGGATGGGTGATTTTAAAGCTGCTGCA
AAGGTAGCCTTAAGACGTGTTGAGGCAATATACTACAAGCCCCAGGAAGTTTATGATGCAATGAGGAAATTGGCTGAGTT
GGTGGAAGAAGAAGAAGAAACTGAGGAGGCCAAAGAGGAAAGTGGACCTCCTACTTCATTTATTGTTGTTCCGGAGGTTG
TTCCCCGTAAGCCTACCTTCCCAGAGAGCAGCCGAGCTATGATGGATATTCTTGTGTCCCTTATCTACAGAAATGGAGAT
GAGCGGACCAAAGCGCGTGCGATGCTATGTGATATCAATCACCATGCTTTAATGGACAACTTTGTGACTGCTAGAGACCT
GTTGCTGATGAGTCATCTGCAAGACAACATCCAGCACATGGACATCTCAACACAGATTCTCTTTAACAGGACCATGGCGC
AGCTTGGTCTTTGCGCCTTCCGGGCTGGAATGATCACTGAGTCCCATAGCTGCCTTTCCGAGCTGTACTCTGGTCAAAGA
GTGAGAGAGTTGCTTGCCCAAGGTGTCTCGCAAAGCCGATACCATGAGAAAACCCCGGAGCAGGAAAGGATGGAAAGGAG
AAGACAAATGCCGTACCACATGCACTTAAACCTTGAGCTTCTGGAGGCAGTTCATCTCATCTGTGCCATGCTTCTTGAAG
TCCCAAACATGGCTGCAAACTCGCACGATGCCAAACGCAGAGTGATTAGCAAGAATTTCCGCCGCCTGCTCGAGATCAGT
GAAAGGCAAGCATTCACTGCACCGCCTGAGAATGTACGTGACCATGTCATGGCAGCCACCAGAGCCCTGACCAAAGGAGA
TTTCCAGAAGGCGTTTGAAGTTTTGAACTCTCTTGAGGTCTGGAGGCTGCTCAAGAACCGTGACAGCATCCTTGACATGG
TGAAGGATAGGATCAAAGAAGAGGCTCTAAGGACTTACCTATTCACATACTCAAGCTCTTATGAGTCCTTGAGTCTTGAT
CAGCTGGCCAAAATGTTTGACGTCTCTGAGCCGCAGGTCCACAGCATTGTGAGTAAGATGATGATTAATGAGGAACTGCA
TGCAAGCTGGGATCAGCCAACACGATGCATCGTCTTCCATGAAGTGCAACACAGCAGATTACAATCATTGGCTTTCCAGT
TAACGGAGAAACTCTCGATTTTGGCAGAAAGCAATGAGAGGGCAATGGAATCTAGAACCGGTGGAGGTGGTCTGGATCTG
AGTTCAAGGAGAAGGGACAACAATCAGGACTATGCAGGAGCAGCATCAGGTGGTGGTGGATATTGGCAAGACAAGGCGAA
TTACGGACAAGGAAGACAAGGCAACAGATCAGGTTATGGTGGAGGAAGATCATCTGGACAAAATGGTCAGTGGTCAGGGC
AGAACCGAGGAGGAGGGTATGCAGGAAGAGTTGGTTCAGGAAACAGAGGTATGCAGATGGATGGCTCAAGCCGTATGGTG
AGTCTTAACCGAGGTGTTCGTACTTAAAGAGGATGAGGAGAAATCTGCAGTGTTGACCTTAGTCTCAACCTTTTGTTATG
TTTTGGATTCCTTTTGGTTATCAAATGGTTCTTTCTAAGAGATGTTCATCACATTTTCTCGCATTGTGATTGTTTATTTT
CTTTGTGATATTGGCAGTTGTTGGAAAAGACTTTTAAGAATGCTTTACTGGAAAGTTTAATAAGTTTTTTTTTATGCGCC

1=============================Open Reading Frames===========================3040

                                                                                  +1
    =======================================================================       +2
      ===                 =======                                ======           +3
                              ===                                 ====            -3
           =========     ===                 === =====                            -2
                                              ===== ===  ====                     -1
    =======================================================================       ESTScan(+)
                                                                                  
 ==========================================================================       framefinder(+)
________________________________________________________________________________

1===================================TC280751================================3040
      1a      >                            7   >   < 9          12     >
....................................................................<    1b    
                                      2                                       >
       3       >                                8  >         13   >  <   22    
                                      4                                     >
                                     5                                   >
                                      6                                   >
                                                      10    >    <      14      
                                                           11        >     24 >
                                                                    <    15    
                                                                    <    16    
                                                                    <    17    
                                                                     <    18    
                                                                     <    19    
                                                                     <   20    
                                                                     <   21    
                                                                       <  23   

                                                                                                                                                             
 #  Src  EST Id              GB#           Clone/Protein   left  right Library/Protein name
                                                                                                                                                             
 1a I024 AV825263            AV825263      RAFL07-07-F13       1   588 RAFL7
 1b I024 AV790796            AV790796      RAFL07-07-F13    2575  2995 RAFL7
 2  ETG  NP421919            AY064006      AAL36362            2  2995 putative eukaryotic translation initiation factor 3 subunit 8 [Arabidopsis thaliana]
 3  I006 AV547468            AV547468      RZL32f10F          26   591 Arabidopsis thaliana roots Columbia
 4  ETG  NP030219            AF040102      AAC83464           44  2942 p105
 5  ETG  NP207947            AL163763      CAB87414          125  2827 PROBABLE EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 8
 6  ETG  NP564081            BT001961      AAN71960          125  2858 putative eukaryotic translation initiation factor 3 subunit 8 [Arabidopsis thaliana]
 7  I008 M59F4STM            BE525190      M59F4            1505  1835 Arabidopsis developing seed
 8  I008 M76N01STM           BE530161      600039607R1      1734  1986 Arabidopsis developing seed
 9  I027 AG_FSL_21F07        CF773725      21F07            1935  2115 Arabidopsis ag-1 35S:AG-GR forward subtraction library
10  I008 19014               N37787        210I18T7         1937  2322 Lambda-PRL2
11  I02D 215e12.p1           CK118959      MPMGp2011E1221   1966  2653 AtM1
12  I002 701496360           AI993451      701496360        2251  2749 A. thaliana, Ohio State clone set
13  I008 12091               T88395        156A14T7         2253  2559 Lambda-PRL2
14  I006 AV533234            AV533234      FB058c05F        2487  3033 Arabidopsis thaliana flower buds Columbia
15  I024 BP648547            BP648547      RAFL19-79-K12    2582  3018 RAFL19
16  I024 AV791052            AV791052      RAFL07-08-J18    2585  3010 RAFL7
17  I024 BP656607            BP656607      RAFL19-27-A14    2602  3019 RAFL19
18  I024 BP606759            BP606759      RAFL16-72-B19    2607  3040 RAFL16
19  I024 BP779891            BP779891      RAFL07-70-C08    2611  3026 RAFL7
20  I024 BP652345            BP652345      RAFL19-92-M13    2625  3018 RAFL19
21  I024 BP646801            BP646801      RAFL19-73-F24    2627  3018 RAFL19
22  I024 BP623246            BP623246      RAFL17-06-B16    2637  2995 RAFL17
23  I006 AV529944            AV529944      APZL53b08R       2686  3002 Arabidopsis thaliana aboveground organs two to six-week old
24  I013 ATTS5852            F19813        GBGG45           2819  3010 Grenoble-B



Sequence source codes:

I013 CNRS CERMO, Universite Grenoble Biologie moleculaire et vegetale
I002 Genome Systems  Inc.  a wholly owned subsidiary of Incyte Pharmaceuticals  Inc.,  
I008 Michigan State University, Dept. of Biochemistry & Molecular Biology
I027 The Pennsylvania State University, Biology Department and Biotechnology Institute
I006 Kazusa DNA Research Institute, The First Laboratory for Plant Gene Research
I02D Max Planck lnstitute for Molecular Genetics, Plant Protein Chip Group, Department Lehrach
I024 RIKEN Genomic Sciences Center, Plant Functional Genomics Research Group
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 +)	4	(used as -)	1	(5'/3' source not known)
	3' ESTs	(used as -)	10	(used as +)	1	(5'/3' source not known)
	total	14		2		5
Expressed transcripts		3		-
Predicted genes		1		-
Protein hits		5		-
Trimmed polyA/T		-		-

Tentative Annotation:
UP|IF38_ARATH (O49160) Eukaryotic translation initiation factor 3 subunit 8 (eIF3 p110) (eIF3c) (p105), complete 0

GO annotation

GO id	GO term	EC#	Type	GOpep link	%sim	%cov
GO:0003743	translation initiation factor activity	-	M	TAIR\|gene:2084537	90	86
GO:0005852	eukaryotic translation initiation factor 3 complex	-	C	TAIR\|gene:2084537	90	86
GO:0006413	translational initiation	-	B	TAIR\|gene:2084537	90	86

Referenced by :

Tentative Ortholog Group 968138 (general group)

Tentative Ortholog Group 969139 (general group)

Tentative Ortholog Group 974224 (general group)

Tentative Ortholog Group 974800 (general group)

Tentative Ortholog Group 980597 (general group)

Tentative Ortholog Group 985772 (general group)

Maps to :

Genome	Chromosome	End5	End3	Score
Arabidopsis genome	chr3	20,844,556	20,848,136	3024
Mosquito genome	chr3R	40,619,049	40,621,743	40
Tetraodon genome	chr10	5,476,889	5,479,538	34
Yeast genome	chr8	363,038	366,062	33

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Acknowledgements
	The Gene Index Project is supported in part by funding from the US National Science Foundation through grant #DBI-0552416.

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GCOD

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Gene Indices

Genomic Maps

EGO

**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.

TC sequence strand: coding strand

Home

GCOD

Resourcerer

Gene Indices

Genomic Maps

EGO

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.

TC sequence strand: coding strand

**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.