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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatgtgattgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT

Basic information

species Glycine max
transcript GLYMA11G02410.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 3
lower sequence: AT4G25740.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatgtgattgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT
||| ||| | | || | | || | | | | | | |||| | | ||| | | || | |||||||| || || |||||||||| ||| ||||| | ||||||||||||||||||||||||||| ||||| || || || | || | | |
gtagtttcatctttaaatcccttgacctgtccggtctga--gggattggctaatttctgat--attgttttggctt--ttgttttc---agAGGACCACCTCGCTCTGATGGAGACCGTCCCAGATTTGGTGACCGTGATGGATACCGTGGAGGCCCACGTGGTGGTGATGAGAAGGGTGGAGCTCCAGCT

upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 3
lower sequence: AT4G25740.2 (Arabidopsis thaliana), 3'ss of exon 3
---------gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatg----tgattgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT---------------------
|| || | | |||| || | || || | | | | | ||| | || | | | || || | || | ||| || |||||||||| ||| ||||| | ||||||||||||||||||||||||||| ||||| || || || | || | | |
gcccacctggtgatcgccaaaggtagtttcatctttaaatcccttgacctgtccggtctgagggattggctaatttctgatattgttttggcttttgttttcagaggaccacctcgctctgatggagaccgtcccagatttggtgaccgtgatggataccgtggagGCCCACGTGGTGGTGATGAGAAGGGTGGAGCTCCAGCTGATTTCCAGCCGTCTTTCCAA

upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------------------------------------------------gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatgtga-ttgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT
||| | || || ||| || | |||| | | || | || | | | || || | |||| | ||| || |||||||||||||| ||||| || | ||||||||| ||||| ||||||||||||||||| |||||| ||||| || ||||||||||||
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT

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|8404306|gb|BE059940.1|BE059940
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCTGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCTGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|14990519|gb|BI316192.1|BI316192
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|208101481|gb|GD899022.1|GD899022
EST:     CGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: CGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|15204011|gb|BI426708.1|BI426708
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|4301666|gb|AI443223.1|AI443223
EST:     CCAAGCCCGCGGGAAGACCATTCG-TGGCCCAACCCGG--ATCGCCCCAG                         GGGCCCACCTCGCTTTGAC
genomic: CCAAGCCCGCGGGAAGACCATTCGGTGGCCCA-CCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGAC
EST: gi|18734269|gb|BM528086.1|BM528086
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|21676898|gb|BQ629249.1|BQ629249
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|22541467|gb|BU091310.1|BU091310
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAN                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|10844274|gb|BF067584.1|BF067584
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|298189969|gb|HO031634.1|HO031634
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGCGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGGGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|15338023|gb|BI498679.1|BI498679
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|298163410|gb|HO012143.1|HO012143
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|298198100|gb|HO039639.1|HO039639
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|5820037|gb|AI988243.1|AI988243
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|20448412|gb|BQ252536.1|BQ252536
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTT
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTT
EST: gi|7146276|gb|AW508130.1|AW508130
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|5606370|gb|AI900524.1|AI900524
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCTCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTC
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTC
EST: gi|13252336|gb|BG363239.1|BG363239
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|4314073|gb|AI461192.1|AI461192
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|208298767|gb|GE096292.1|GE096292
EST:     GCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|10845562|gb|BF068656.1|BF068656
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|12774031|gb|BG238958.1|BG238958
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|20207847|gb|BQ133936.1|BQ133936
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGT
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGT
EST: gi|19052687|gb|BM731354.1|BM731354
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|298180908|gb|HO022347.1|HO022347
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|27424478|gb|CA935998.1|CA935998
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|14259594|gb|BG882502.1|BG882502
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|8284522|gb|BE022090.1|BE022090
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTATGACGGAGAGAGGAGATTCGGTGGTGACCGTAATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|18734547|gb|BM528246.1|BM528246
EST:     GGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|8827009|gb|BE210739.1|BE210739
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|15338149|gb|BI498805.1|BI498805
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|298183411|gb|HO028624.1|HO028624
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGCGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
EST: gi|9900485|gb|BE609453.1|BE609453
EST:     GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAG                         GGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG
genomic: GCCAAGCCCGCGGGAAGACCATTCGGTGGCCCACCCGGTGATCGCCCCAGgtaattttaa ... ttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactatgatttttctgtgtttgaccaaatattcaaatgtgattgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT
                  gtttgac  putative branch site (score: 4)
 ttgttttc  putative PPT
 aaatattcaaatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatgtgattgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG