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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgctattgggtggtcatggttcctttgtctgaacatgcttgtgcttgccatattatgcattccgacattatatcgttgaatggttatttccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCG

Basic information

species Zea mays
transcript GRMZM2G165998_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165998_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g06620.1 (Oryza sativa), 3'ss of exon 1
catgctat-tgggtggtcatggttcctttgtctgaacatgcttgtgcttgccatattatgcattccgacattatatcgttgaatggttatttccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCG
 || | |  |   |  |  | | |  ||   ||  || |      |   |  |||   ||  |       || |   ||    ||   ||| | |   |||| ||||||||||||||||||| |||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  
gatacaacgtaaattatgttagatgtttaaactagacctcagatagtgggttatacc-tgtttctacttgttctgaagtatgttgtccattgctaatttagGATGGCAAGGAGGAGGTCATCGAAGCTTGGTACATGGATGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTTA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|32916516|gb|CF021328.1|CF021328
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGGGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|15208775|gb|BI430659.1|BI430659
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32915127|gb|CF019939.1|CF019939
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32910309|gb|CF015121.1|CF015121
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211136266|gb|FL235028.1|FL235028
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32918894|gb|CF023706.1|CF023706
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137227|gb|FL235054.1|FL235054
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137217|gb|FL235044.1|FL235044
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211136272|gb|FL235034.1|FL235034
EST:     AGGAGCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGAACGACAGTGAAGA
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGG-ACGACAGTGAAGA
EST: gi|32858130|gb|CD997811.1|CD997811
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|5895571|gb|AW036817.1|AW036817
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211136265|gb|FL235027.1|FL235027
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGGACGACAGTGAAGA
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACAT-GGACGACAGTGAAGA
EST: gi|32851451|gb|CD991132.1|CD991132
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211136269|gb|FL235031.1|FL235031
EST:     GCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: GCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32915396|gb|CF020208.1|CF020208
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGGGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32910482|gb|CF015294.1|CF015294
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|31611894|gb|CD568516.1|CD568516
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137218|gb|FL235045.1|FL235045
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|9731247|gb|BE509999.1|BE509999
EST:     AGGAGCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32916506|gb|CF021318.1|CF021318
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGGGGAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32864327|gb|CF004009.1|CF004009
EST:     TGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: TGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32916207|gb|CF021019.1|CF021019
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|111990462|gb|EE331881.1|EE331881
EST:     CACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAACGCATGGTACATGGATGACAGTGAAGA
genomic: CACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAA-GCATGGTACATGGACGACAGTGAAGA
EST: gi|74034874|gb|DT535365.1|DT535365
EST:     CTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGAGATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: CTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211135335|gb|FL235023.1|FL235023
EST:     AGGAGCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137219|gb|FL235046.1|FL235046
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|193502968|gb|AM938541.1|AM938541
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|40287017|gb|CK327409.1|CK327409
EST:     AGGAGCAGCTACACTGCGGACGGGCTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137220|gb|FL235047.1|FL235047
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211136278|gb|FL235040.1|FL235040
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137222|gb|FL235049.1|FL235049
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32868008|gb|CF007690.1|CF007690
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|71770494|gb|DR968431.1|DR968431
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|211137225|gb|FL235052.1|FL235052
EST:     AGGAGCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|15100561|gb|BI396352.1|BI396352
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|108824274|gb|EC278282.1|EC278282
EST:     AGGAGCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32933164|gb|CF037976.1|CF037976
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG
EST: gi|32858765|gb|CD998446.1|CD998446
EST:     AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAG                         GTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGATGACAGTGAAGAG
genomic: AGGACCAGCTACACTGCGGACGGACTTCGGGCATGGAGGGCCAGTTCCAGgtaccggcaa ... tccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgccatattatgcattccgacattatatcgttgaatggttatttccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCG
                                        ttatttcc  CT-rich tract
                     acattatat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgctattgggtggtcatggttcctttgtctgaacatgcttgtgcttgccatattatgcattccgacattatatcgttgaatggttatttccatcatagGTTGGCAAGGAGGAGGTCATCCAAGCATGGTACATGGACGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA