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At3g55620 SYNGENTA 31329

Genomic Sequence (from TAIR)

tctctacaatacctcattttacatgctccaattccccattaccaactataatcttactccatctcttattcaccacttacatttttccaaatcacattct
caccaaaaaaaaactgatttcattataaaaactctcaacatttttttccaaatataatcaaaatagttttcaaaagtagtcttgactttcaacattactt
ttttttttttttaacatcttcattttattgatattgtactttcaacattccttttcctccaaggctttcaaacaagataatttgtcttctttttttttta
atttatttaaaatctttttttaatgatgtataattg◄gagcctcctttaaattagggcccaaacggtggcttcttttagatt►ata►acccagggccggc
gcaacccttcttcttaacaaaaaccttttgattccaattgttct◄tctctcttcttcttcttcttcttcttcttcttcttcgccgcttcttctctctcga
attcaccccatctcaagtaagcttctcctatttccttgttataccaaacaaacaccatcttcaagtcaattgattttgttaccctaattgttcccgtccc
cgtcttgtaatataatcgaaaaatcgaaactttctgttttagagacatggattttgtgaaccctaattgttaacgaatcgttgatatctgtgacgtatat
aaaccctaatttcgttttcatgtttctttatctacgcaggtgtacgttagcctcctccctctaATGGCGACTCgtaagttttctgcagagcttacttatg
atattgttgtgtttactcttctgtgtatttgaccttaatgggatttgtgggtaatacgcagGTCTTCAGTTTGAGAACAACTGCGAAGTTGGTGTCTTTT
CCAAACTCACTAATGCCTATTGCTTAGTCGCTATAGGAGGCTCTGAGAACTTTTACAGgtaccttttttttttttctctgtaaagttttcagtattgttt
ttgcttcttctatttcacttttttgatgtttttggtttgatgatttgtgtagTGCTTTTGAGTCGGAGTTAGCAGATGTTATCCCTATTGTTAAGACCTC
TATTGGAGGAACACGAATTATTGGGCGTCTTTGTGCTGgttagctttctcaactagctgttatattttcttgcttcaaatcatcgtgattatttcattac
tttagcgtagtgaatgtggttttgtgtttcttcgtatagGAAACAAGAATGGGCTTCTTGTACCTCATACAACAACTGACCAAGgtaattttatacttct
ttcctcagatcgtttctcataacaattaagaattgattgtttaataccagcatgatccagttgtctgagatagagattgtagagtttttggtgaatatct
tttatgtaacttgcctgaagcatctactctgcgcctctgcccatacctgtttcatttcagtttatgagtggactttttataactgaataagcttttggtg
aagatgattttcctccttaacttgttgatgattttgtaatgttgcaatatttattgagtctcttgttcttttatattagaaatctatataggttttaggt
ctgtaattggttgcatctcctgagtcctgcttatttttttatgtttactcgtccagAGCTTCAACACTTAAGGAACAGTCTACCTGATCAAGTTGTGGTC
CAGCGAATTGATGAACGTCTGTCTGCTCTTGGAAATTGCATTGCCTGCAATGACTATGTAGCTCTTGCCCACACCGATCTTGATAAGgtaaagattcatg
tcatactttatttttctaatgaaaccttttcaaaaacatatactcttttcatgactggcaagaaatggtgaaagaataagtgcgcatttttacaaaagtt
agcagaaatgtaattaagcctttgtaatcaccatgaatcttatatcttctgatgatgatgataacgataacagagttgtacgtatggcgtttggtttgat
gcctctggttcttgtgtttttattttgctttgatagGAAACCGAGGAAATAATAGCGGATGTACTTGGCGTTGAAGTTTTCCGTCAGACAATTGCAGGCA
ACATTCTCGTGGGCAGTTACTGTGCCCTATCCAACAAAGGTGGAATGgtaagagaatgaaaaacataacttcccttcggaaatggatggcattggcattg
gtctctcattagaatttgaatgtcttttctcaaatagGTCCATCCTCACACCTCAGTGGAAGACTTGGAAGAACTCTCAACACTTCTTCAAGTCCCTCTC
GTTGCAGGAACCGTGAACCGTGGTAGTGAAGTTATCGCTGCGGGTATGACCGTTAATGATTGGACCTCTTTCTGCGGTTCAGACACAACTGCGACTGAGC
TCTCTGTCATAGACAGCATCTTCAAGCTAAGGGAAGCCCAACCCAGCTCTATCGTCGATGAGATGAGGAAGTCATTGATCGATACCTATGTTTAAatttt
gtttgtttggatgacacacacatcccaacatcgccaatgtgtcaatgtcagaaaattttcatactctactgtttgcaagaattagctgttttattttatt
tttgtgtggtttttaacagtttaaaggaaatctgttgatgtctctttgaatctttctgagtaagtgataagaaaattctccttaatactacacacatttt
caattttcaatttggggtccacattaggttcaaattttagtggagaagaaaccattggtgaatggataacggttttgttcggtacaaatccgaattctgc
aattatatgtgtgtagataaagttaacacctttttcgtttagatagtttgaagattaaactgaaagttaggacctttcatttccaatctctaaacccatt
tctctacgattagagaagctgacatcaaaattgaaacttgggaaatttttggatttgttcttcttctATGGCAACTGgtaaattttctgtttctctataa
ctga

Border_1 (31329_LBD)


GCCTTTTCAGAAATGGATAAATAGCCTTGCTTCCTATTATATCTTCCCAAATTACCAATACATTACACTAGCATCTGAATTTCATAACCAATCTCGATAC
ACCAAATCGAATTCAATTCGGCGTTAATTCAGTACATTAAAAACGTCCGCAATGTGTTATTAAGTTGTCTAAGCGTCAATTTGTTTACACCACAATATAT
CTTTGTACAATTATACATCATTAAAAAAAGATTTTAAATAAATTAAAAAAAAAAGAAGACAAATTATCTTGTTTGAAAGCCTTGGAGGAAAAGGAATGTT
GAAAGTACAATATCAATAAAATGAAAATGTTAAAAAAAAAAAA

Start of BLAST Alignment:	NT < 318 / Exon 1 of 8 (Exon in 5’ UTR)
First 15 bp Perfect Match:	NT < 423 / Upstream

BLAST Details:
Query Sequence: 31329_LBD 
Length: (343 letters) 
Database: TIGR AGI BAC Sequences (DNA);
                                                                     Smallest
                                                                       Sum
                                                              High  Probability
Sequences producing High-scoring Segment Pairs:              Score  P(N)      N

F1I16 67296                                                    408  3.0e-12   1
T13E11 48851                                                   174  0.11      1
F21B23 68076                                                   167  0.88      1
T2E6 51737                                                     166  0.94      1



F1I16 67296
        Length = 103,784

  Minus Strand HSPs:

 Score = 408 (67.3 bits), Expect = 3.0e-12, P = 3.0e-12
 Identities = 148/235 (62%), Positives = 148/235 (62%), Strand = Minus / Plus

Query:   331 AACATTTTCATTTTATTGATATTGTACTTTCAACATTCCTTTTCCTCCAAGGCTTTCAAA 272
             ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22122 AACATCTTCATTTTATTGATATTGTACTTTCAACATTCCTTTTCCTCCAAGGCTTTCAAA 22181

Query:   271 CAAGATAATTTGTCTTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAATGATGTATA 212
             |||||||||||||||||                                |||||||||||
Sbjct: 22182 CAAGATAATTTGTCTTCTTTTTTTTTTAATTTATTTAAAATCTTTTTTTAATGATGTATA 22241

Query:   211 ATTGTA-CAAAGAT-ATATTGTGGTGTAAACAAATTGACGCTTAGACAACTTAATAACAC 154
             |||| | |     | | |||  ||   ||||   | |   |||  | |  ||| |||| |
Sbjct: 22242 ATTGGAGCCTCCTTTAAATTAGGGCCCAAACGG-TGGCTTCTTTTAGA--TTA-TAACCC 22297

Query:   153 ATTGCGGACGTTTTTAATGTACTGAATTAACGCCGAATTGAATTCGATTTGGTGT 99
             |  || | ||       | | || ||  ||  ||   |||| ||| | ||| | |
Sbjct: 22298 AGGGCCGGCGCAACCCTTCTTCTTAACAAAAACCTT-TTGA-TTCCAATTGTTCT 22350


T13E11 48851
        Length = 95,959

  Plus Strand HSPs:

 Score = 174 (32.2 bits), Expect = 0.11, P = 0.11
 Identities = 90/141 (63%), Positives = 90/141 (63%), Strand = Plus / Plus

Border_2 (31329_RBU)


ATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTGTGTGGAATTGTGAGCGGATAACAATTTCACACAGGAAACAGCTATGACYMTGA
TYACGCCAAGCTCGAAATTAACCCTCACTAAAGGGAACAAAAGCTGGAGCTCGCTTGAGCTTGGATCAGATTGTCGTTTCCCGCCTTCAGTTTAAACTAT
CAGTGTTTGAATTACCCAGGGCCGGCGCAACCCTTCTTCTTAACAAAAACCTTTTGATTCCAATTGTTCTTCTCTCTTCTTCTTCTTCTTCTTCTTCTTC
TTCTTCGCCGCTTCTTCTCTCTCGAATTCACCCCATCTCAAGTAAGCTTCTCCTATTTCCTTGTTATACCAAACAAACACCATCTTCAAGTCAATTGATT
TTGTTACCCTAATTGTTCCCGTCCCCGTCTTGTAATATAATCGAAAAATCGAAACTTTCTGTTTTAGAGACATGGATTTTGTGAACCCTAATTGTTAACG
AATCGTTGATATCTGTGACGTATATAAACCCTAATTTCGTTTTCATGTTTCTTTATCTACGCAGGTGTACGTTAGCCTCCTCCCTCTAATGGCGACTCGT
AAGTT

Start of BLAST Alignment:	NT < 378 / Exon 1 of 8 (Exon in 5’ UTR)
First 15 bp Perfect Match:	NT < 375 / Exon 1 of 8 (Exon in 5’ UTR)

BLAST Details:
Query Sequence: 31329_RBU 
Length: (605 letters) 
Database: Genes from AGI, Total Genome (DNA);
                                                                     Smallest
                                                                       Sum
                                                              High  Probability
Sequences producing High-scoring Segment Pairs:              Score  P(N)      N

At3g55620 68416.t05721 eukaryotic translation initiation ...  1574  9.5e-67   1
At2g39820 68415.t04502 eukaryotic translation initiation ...   182  0.99      1


>At3g55620 68416.t05721 eukaryotic translation initiation factor 6, putative /
           eIF-6, putative similar to SP|O55135 Eukaryotic translation
           initiation factor 6 (eIF-6) (B4 integrin interactor) {Mus musculus};
           contains Pfam profile PF01912: eIF-6 family
        Length = 2304

  Plus Strand HSPs:

 Score = 1574 (242.2 bits), Expect = 9.5e-67, P = 9.5e-67
 Identities = 338/395 (85%), Positives = 338/395 (85%), Strand = Plus / Plus

Query:   211 ATTACCCAGGGCCGGCGCAACCCTTCTTCTTAACAAAAACCTTTTGATTCCAATTGNNNN 270
             || |||||||||||||||||||||||||||||||||||||||||||||||||||||    
Sbjct:     1 ATAACCCAGGGCCGGCGCAACCCTTCTTCTTAACAAAAACCTTTTGATTCCAATTGTTCT 60

Query:   271 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGAATTCA 330
                                                                 ||||||||
Sbjct:    61 TCTCTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCGCCGCTTCTTCTCTCTCGAATTCA 120

Query:   331 CCCCATCTCAAGTAAGCTTCTCCTATTTCCTTGTTATACCAAACAAACACCATCTTCAAG 390
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:   121 CCCCATCTCAAGTAAGCTTCTCCTATTTCCTTGTTATACCAAACAAACACCATCTTCAAG 180

Query:   391 TCAATTGATTTTGTTACCCTAATTGTTCCCGTCCCCGTCTTGTAATATAATCGAAAAATC 450
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:   181 TCAATTGATTTTGTTACCCTAATTGTTCCCGTCCCCGTCTTGTAATATAATCGAAAAATC 240

Query:   451 GAAACTTTCTGTTTTAGAGACATGGATTTTGTGAACCCTAATTGTTAACGAATCGTTGAT 510
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:   241 GAAACTTTCTGTTTTAGAGACATGGATTTTGTGAACCCTAATTGTTAACGAATCGTTGAT 300

Query:   511 ATCTGTGACGTATATAAACCCTAATTTCGTTTTCATGTTTCTTTATCTACGCAGGTGTAC 570
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:   301 ATCTGTGACGTATATAAACCCTAATTTCGTTTTCATGTTTCTTTATCTACGCAGGTGTAC 360

Query:   571 GTTAGCCTCCTCCCTCTAATGGCGACTCGTAAGTT 605
             |||||||||||||||||||||||||||||||||||
Sbjct:   361 GTTAGCCTCCTCCCTCTAATGGCGACTCGTAAGTT 395


>At2g39820 68415.t04502 eukaryotic translation initiation factor 6, putative /
           eIF-6, putative similar to SP|O55135 Eukaryotic translation
           initiation factor 6 (eIF-6) (B4 integrin interactor) {Mus musculus};
           contains Pfam profile PF01912: eIF-6 family
        Length = 1413

  Plus Strand HSPs:

 Score = 182 (33.4 bits), Expect = 4.5, P = 0.99
 Identities = 70/103 (67%), Positives = 70/103 (67%), Strand = Plus / Plus