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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaactggtttgtttttctgtatgatattcttgaattgtagacttttttttttatttaagcataagggttaacagaaatggattacaatccataggtgagatattttacaagaattggcttaccagtaatagttttcattattatagcacacttcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG

Basic information

species Glycine max
transcript GLYMA12G05980.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g41020.1 (Oryza sativa), 3'ss of exon 3
gtaagttaactggtttgtttttctgtatgatattcttgaattgtagacttttttttttatttaagcataagggttaacagaaatggattacaatccataggtgagatattttacaagaattggcttacc---agtaatagttttcattattatagcacact--tcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG
                                                                                                    || |    | ||   |   |||  ||      | |   ||      |||||  |||    |  |    |||  ||||    ||   |    || |   |||  |||    | |||  | ||| ||||||| ||||| |||||||| |||||| |||| ||||||||||| |||
----------------------------------------------------------------------------------------------------gtaatcgttcttgtcaatcttgatttgtgctgattggaagcacgttttatttcagcgagttaattgtgttgctattatgaatgatctccaattttgggcagAAAGACCAGAGGCATTTGGTGCTGGCTCATCTTTTCGACAAGCCTTGCTTTCTAGGATTGCTTGCAGTTCAG

upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 3
gtaagttaactggtttgtttttctgtatgatattcttgaattgtagacttttttttttatttaagcataagggttaa-cagaaatggattacaatccataggtgagatattttacaagaattggcttaccagtaatagttttcattattatagcacacttcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG
                                         | |  |     | | | || |   | ||    ||||   | ||  ||| ||| | |            |||  ||||   | |      | || ||  | |  ||| | |  ||    | |   ||   ||       |  ||||  | | | |||||||||   || ||  | ||| ||||||||||||||||||| |||||||||||||| ||||||||| |||||
----------------------------------------gtatgtaacacatatctgatatcttcctagcaattaagttgtaaatgatcacatttcg----------gtttagcaagtccttgtcccatactactatatctgcttagtttgtca----ttagcatgagctt----cctttgtgttgctatgtgcagGGAGATCAAAAACATTTTGTGCTGGCTCACCTTTTTGACAAACCATGCTTTTTAGGTTTGCTTGCAATGCAG

upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 3
gtaagttaactggtttgtttttctgtatgatattcttgaattgtagacttttttttttatttaagcataagggttaacagaaatggattacaatccataggtgagatattttacaagaattggcttaccagtaatagttttcattattatagcacacttcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG
                        |||||  |||| ||  |   | |   || |  | ||| ||   |||  | | |  |   ||  |||| |       ||   ||||       |  |     | |||     | ||||  | ||| | |     | ||   ||   ||     | |  |||   | | | |||||||||   || ||  | ||||||||||||||||||||||| || |||||  |||| ||||||||||| |||
------------------------gtatgcaattcatg--tctgatatcgttctagtaattaaattgtaaatgatca-ggtgttgatttactaaatccctgtagcatat-------ggttatatctgcca-----aattttattgatttttgggttttgca---tgagctt----cttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG

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|208338233|gb|GE136861.1|GE136861
EST:     AAGAAACTGGAGGAATGAATGATGTCCTTTATAGATTATACAGCATAACG                         GGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTT-GACAAGCCATGCTTT
genomic: AAGAAACTGGAGGAATGAATGATGTCCTTTATAGATTATACAGCATAACGgtaagttaac ... ttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTT
EST: gi|193565338|gb|FK522805.1|FK522805
EST:     AAGAAACTGGAGGAATGAATGATGTCCTTTATAGATTATACAGCATAACG                         GGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTT
genomic: AAGAAACTGGAGGAATGAATGATGTCCTTTATAGATTATACAGCATAACGgtaagttaac ... ttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattatagcacacttcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG
                                          tttttctattc  CT-rich tract
                          aattaaagtt  TA-rich tract