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.

>TC286407 TC4234 TC7792 TC11570 TC11825 TC49711 TC50394 TC55622 TC56917 TC138829 TC150729
GCCCAATATCTTCCTTTGTCAATCTCTTGAGAGTTTTTGCTTCCTCGTCTTCTTCGATTCATCAAACAGCGTGTGTTTTT
TGTTTAGAGTTGGAAGAGACGAATCGAATTTTGAAGCTTTCTTTTATGTCTGACAAGATATCTCCGTTTTGTTGTCAATC
TGGTTGCTTGGAAAACACAGTCCTACATCCAGAATTAAGGACTACTACTAGTTCCTCCATCACTTTAGGGTCTCGCATCT
TCAAACCGGAGATCCCTCCTCTTTCTCTCCACTTTTTTAGCTAAGAAGAATGGCGCTGCAGAACATTGGTGCTTCCAACC
GTAACGATGCCTTCTACAGGTACAAGATGCCTAAGATGGTTACCAAAACCGAAGGCAAAGGTAATGGCATTAAGACCAAC
ATTATCAACAATGTTGAGATTGCCAAAGCCTTGGCTAGACCGCCTTCTTATACGACCAAGTACTTTGGTTGTGAGCTTGG
AGCGCAGTCTAAGTTTGATGAGAAGACTGGGACGTCGCTTGTGAATGGAGCTCACAACACGTCTAAGCTTGCTGGGCTTT
TGGAGAATTTTATTAAGAAGTTTGTTCAGTGTTATGGATGTGGTAACCCGGAGACTGAGATTATTATTACGAAGACGCAG
ATGGTGAATCTCAAGTGTGCTGCTTGTGGGTTTATCTCTGAGGTCGACATGAGGGATAAGTTGACTAATTTCATTCTCAA
GAACCCACCTGAGCAGAAGAAGGTGTCAAAGGATAAGAAAGCAATGAGGAAAGCTGAGAAGGAGAGGCTTAAAGAAGGCG
AGCTAGCTGATGAGGAGCAGAGAAAGCTGAAAGCTAAGAAGAAAGCATTGTCTAACGGCAAGGATTCTAAGACGTCTAAG
AACCATTCTTCTGATGAGGATATAAGCCCGAAGCATGATGAGAATGCTCTAGAGGTGGATGAGGATGAAGATGATGATGA
TGGTGTCGAGTGGCAAACTGATACTTCCCGAGAAGCTGCTGAGAAAAGAATGATGGAACAGTTGAGTGCTAAAACTGCCG
AAATGGTGATGCTCTCTGCAATGGAAGTAGAAGAGAAAAAGGCGCCCAAAAGCAAATCTAACGGGAACGTTGTGAAAACT
GAGAATCCTCCTCCGCAAGAGAAGAATCTCGTGCAGGATATGAAAGAGTATCTGAAGAAAGGGTCACCAATAAGCGCGCT
CAAAAGTTTCATCTCGTCTCTCTCTGAACCTCCTCAAGACATCATGGACGCACTCTTCAATGCTCTCTTTGATGGTGTGG
GAAAGGGATTCGCCAAAGAAGTGACTAAGAAGAAGAATTACTTAGCGGCTGCTGCAACAATGCAAGAGGATGGATCACAG
ATGCATCTGCTCAATTCGATTGGGACATTCTGTGGAAAGAATGGAAACGAAGAAGCTTTGAAAGAGGTGGCTCTGGTTCT
TAAAGCATTGTACGACCAAGACATCATTGAGGAAGAGGTAGTGTTGGATTGGTACGAAAAGGGTCTCACCGGAGCTGACA
AAAGCTCGCCGGTTTGGAAGAATGTTAAGCCTTTTGTGGAGTGGCTTCAGAGCGCTGAGTCTGAGTCCGAAGAGGAGGAT
TGAGTCACTTTTTTCTTCCCTCCTAACTTTTCTTTGCGGCATTTCTTATAATACTTCGTCAGTTTTCAGAATTCTTAAAT
CTTTTTGCTGTGTTCTTATAAAGAAACATCATCTATTAAAGTTGTCTTCGTTTGGATTTGGTTTTGACGACTTTGGGAAA
TATTTATGTTTAAGAAGGTTTCATTGGT

1=============================Open Reading Frames===========================1788

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

1===================================TC286407================================1788
         1         >                 19    >               <        24        
                                      2                                       >
           3a           >                20       >        <        25         
.....................................................................<   3b    
            4a             >             21      >         <        26         
.............................................................<       4b        
             5             >                  22    >       <        27        
             6a              >                              <        28        
.................................................            6b             >
                                       7                                       >
       8        >                                           <        29        
       9        >                                           <        30        
       10       >                                            <       31        
       11a      >                                            <       32        
 ...............................................................<     11b      
             12      >                                       <       33        
                                         13                            >
                                         14                            >
                                         15                             >
                                         16                             >
                          17             >                   <       34        
                            18              >                <       35        
                                                      23a      >
                                                 ..........<       23b       
                                                             <       36        
                                                               <      37       
                                                               <      38       
                                                               <       39       
                                                                <      40      
                                                                <      41      

                                                                                                                                                             
 #  Src  EST Id              GB#           Clone/Protein   left  right Library/Protein name
                                                                                                                                                             
 1  I034 6637807             DR365135      1201982             1   454 CERES-AL46
 2  ETG  NP417456            AY065097      AAL38273            2  1771 putative eukaryotic translation initiation factor 5 [Arabidopsis thaliana]
 3a I024 AV822997            AV822997      RAFL05-14-C15       5   568 RAFL5
 3b I024 AV783882            AV783882      RAFL05-14-C15    1531  1771 RAFL5
 4a I024 AV826637            AV826637      RAFL08-19-M18       5   617 RAFL8
 4b I024 AV795926            AV795926      RAFL08-19-M18    1363  1762 RAFL8
 5  I024 BP561619            BP561619      RAFL08-17-B19       5   630 RAFL8
 6a I034 11073911            DR365133      1353496             5   670 CERES-AN65
 6b I034 13297396            DR384202      1353496          1100  1716 CERES-AN65
 7  ETG  NP412623            AY062694      AAL32772            5  1788 putative eukaryotic translation initiation factor 5 [Arabidopsis thaliana]
 8  I024 BP849927            BP849927      RAFL25-11-B17       6   383 RAFL21
 9  I024 BP861344            BP861344      RAFL25-47-F02       6   372 RAFL21
10  I024 BP842572            BP842572      RAFL21-55-E18      19   385 RAFL21
11a I00D ATTS6031            F19992        TAP0322            31   373 AC16H
11b I00D ATTS6030            F19991        TAP0322          1431  1763 AC16H
12  I006 AV527638            AV527638      APZ41f03R         173   499 Arabidopsis thaliana aboveground organs two to six-week old
13  ETG  NP169019            AC009243      AAF17676          290  1603 F28K19.5
14  ETG  NP305749            AC012193      AAG51628          290  1603 putative eukaryotic translation initiation factor 5; 76444-77757
15  ETG  NP504743            AY114664      AAM47983          290  1637 putative eukaryotic translation initiation factor 5 [Arabidopsis thaliana]
16  ETG  NP629193            BT002163      AAN72174          290  1637 putative eukaryotic translation initiation factor 5 [Arabidopsis thaliana]
17  I025 005D11              BU636273                        303   940 Infected Arabidopsis Leaf
18  I034 11073075            DR365134      1352660           341  1014 CERES-AN65
19  I008 M69N17STM           BE527893      600036871R1       757   994 Arabidopsis developing seed
20  I008 22098               N96933        241O2T7           768  1139 Lambda-PRL2
21  I008 30713               AA651566      273E8T7           813  1123 Lambda-PRL2
22  I002 701503333           AI995273      701503333         970  1180 A. thaliana, Ohio State clone set
23a I00E ATTS2790            Z33699        FAFJ86           1091  1434 Strasbourg-A
23b I00E ATTS3467            Z34707        FAFJ86           1315  1717 Strasbourg-A
24  I024 AV809009            AV809009      RAFL09-57-K09    1318  1745 RAFL9
25  I024 BP615505            BP615505      RAFL16-16-A01    1319  1762 RAFL16
26  I024 AV807545            AV807545      RAFL09-50-O20    1325  1757 RAFL9
27  I024 BP585486            BP585486      RAFL15-02-L10    1342  1762 RAFL15
28  I024 BP586463            BP586463      RAFL15-06-H03    1345  1762 RAFL15
29  I024 BP590071            BP590071      RAFL15-09-G23    1348  1762 RAFL15
30  I024 BP602021            BP602021      RAFL16-53-A18    1348  1762 RAFL16
31  I024 BP625587            BP625587      RAFL17-44-F12    1355  1762 RAFL17
32  I024 BP588334            BP588334      RAFL15-45-O09    1356  1762 RAFL15
33  I024 BP625783            BP625783      RAFL17-45-B16    1358  1762 RAFL17
34  I024 AV809660            AV809660      RAFL09-60-J02    1362  1762 RAFL9
35  I024 BP608847            BP608847      RAFL16-80-A20    1367  1762 RAFL16
36  I024 BP663971            BP663971      RAFL21-50-B16    1367  1771 RAFL21
37  I024 BP622861            BP622861      RAFL17-04-K19    1401  1762 RAFL17
38  I024 BP628631            BP628631      RAFL17-13-E09    1404  1771 RAFL17
39  I006 AV547250            AV547250      RZL28b01F        1409  1781 Arabidopsis thaliana roots Columbia
40  I024 BP628334            BP628334      RAFL17-12-B12    1440  1771 RAFL17
41  I024 BP631933            BP631933      RAFL17-25-F22    1440  1771 RAFL17



Sequence source codes:

I025 Aalborg Universitet, Institut for bioteknologi
I002 Genome Systems  Inc.  a wholly owned subsidiary of Incyte Pharmaceuticals  Inc.,  
I00E Laboratoire de Biologie Moleculaire des Plantes   CNRS, Gigot Claude / L512
I008 Michigan State University, Dept. of Biochemistry & Molecular Biology
I00D Universite de Perpignan, Laboratoire de Physiologie et Biologie Moleculaires Vegetales, URA CNRS 565
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
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 +)	12	(used as -)	-	(5'/3' source not known)
	3' ESTs	(used as -)	22	(used as +)	1	(5'/3' source not known)
	total	34		1		5
Expressed transcripts		4		-
Predicted genes		2		-
Protein hits		4		-
Trimmed polyA/T		1		-

Tentative Annotation:
UP|IF5Z_ARATH (Q9S825) Probable eukaryotic translation initiation factor 5-2 (eIF-5 2), complete 0

GO annotation

GO id	GO term	EC#	Type	GOpep link	%sim	%cov
GO:0003743	translation initiation factor activity	-	M	TAIR\|gene:2196375	94	51
GO:0005634	nucleus	-	C	TAIR\|gene:3435354	100	100
GO:0005737	cytoplasm	-	C	TAIR\|gene:3435354	100	100
GO:0006446	regulation of translational initiation	-	B	TAIR\|gene:2196375	94	51