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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACAAAGGTTTTGGGTTTGTGAGATACAGTACCCATGCTGAAGCAGCTCTTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgctaacttgctggatatttatatgttatgttgtgtgccatattgttgcagctgtgtaatatttattcctgttcgtatggaggtattcttgcca...

Basic information

species Glycine max
transcript GLYMA13G17200.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 11
lower sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 11
AGACAAAGGTTTTGGGTTTGTGAGATACAGTACCCATGCTGAAGCAGCTCTTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgctaacttgctggatatttatatgttatgttgtgtgccatattgttgcagctgtgtaatatttattcctgttcgtatggaggtattcttgcca---
||| ||||| ||||| ||||||||||||||||||||||||||||||||||| ||||| |||||||| ||||| || ||||| | ||||||||| || |||||   ||  ||   ||   |||     ||  |  |  |   |||| |    ||    ||   | | |  |   ||      | | |   ||| ||| |||   
AGATAAAGGCTTTGGTTTTGTGAGATACAGTACCCATGCTGAAGCAGCTCTGGCTATTCAGATGGGAAATGCTCGGATTCTCTGTGGCAAACCAATTAAGgttcattctta---tgaaagattaccttacttcctactccttgccctgagattttttcttattcagaaatgcccccaaaactcttgctttatacttcccaaaa
















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|207813078|gb|GD785012.1|GD785012
EST:     TTGCTACACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGACCTCTAACTCCTC
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTG-CCTCTA-CTCCTC
EST: gi|192302785|gb|FG993805.1|FG993805
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTTTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|13562965|gb|BG551185.1|BG551185
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|207713115|gb|GD694663.1|GD694663
EST:     TGCTATACAGATGGGTAATGCCCGAATTCTATTTGGTCAAACCTATCAAG                         TGTTCATGGGGTTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCT
genomic: TGCTATACAGATGGGTAATGCCCGAATTCTATTTGG-CAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGG-TAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCT
EST: gi|207718528|gb|GD700100.1|GD700100
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|6726944|gb|AW311224.1|AW311224
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|193680636|gb|FK621140.1|FK621140
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|14991448|gb|BI317121.1|BI317121
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTTCTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|207842968|gb|GD815534.1|GD815534
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|208090665|gb|GD888822.1|GD888822
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|10252718|gb|BE820484.1|BE820484
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|208182375|gb|GD980710.1|GD980710
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|193429123|gb|FK393217.1|FK393217
EST:     TGTCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TG-CTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|151407111|gb|EV276926.1|EV276926
EST:     TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: TTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|193710366|gb|FK648650.1|FK648650
EST:     TTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTTTGGGAACTGCCTCTACTCCTCTT
genomic: TTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
EST: gi|208130721|gb|GD929796.1|GD929796
EST:     CTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAG                         TGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT
genomic: CTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgct ... gatatttcagTGTTCATGGGGTAGCAAGCCTACTCCTCTGGGAACTGCCTCTACTCCTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACAAAGGTTTTGGGTTTGTGAGATACAGTACCCATGCTGAAGCAGCTCTTGCTATACAGATGGGTAATGCCCGAATTCTATTTGGCAAACCTATCAAGgtatgttgctaacttgctggatatttatatgttatgttgtgtgccatattgttgcagctgtgtaatatttattcctgttcgtatggaggtattcttgcca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG