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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttactcagtcgttaatttaaccatatttgaccccttaagattgtaacttacttttcttgttaatggtcattgcttctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACATATCAGCACAGGACATATGCTGAAGCCGTTAAGAAAGTCATTGCAAAACC

Basic information

species Glycine max
transcript GLYMA11G19550.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 3'ss of exon 8
gtaggtttactcagtcgttaatttaaccatatttgaccccttaagattgtaacttacttttcttgttaatggtcattgcttctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACATATCAGCACAGGACATATGCTGAAGCCGTTAAGAAAGTCATTGCAAAACC
|||  |   ||   |  || ||    ||   | ||  |  ||  | ||| |    | ||    ||  |    |  | | |     |  |||| ||||| |||||||| ||||| |||||  ||||||| || || || || ||||||||||||||||||||||| ||  ||||| | | |||||| || ||
gtaa-tgatctgttttctttatcattcctcctctgttcttttgcggttggagtgaaatt---ctgacacaacttttggatggaattgccagGTTGGAACCCTAAGACATCACTCTGGGATTTGCTTGAGTCAACCCTCACCTATCAGCACAGGACATATGCTGAGGCTATTAAGCAGGCCATTGCGAAGCC
















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|120491113|gb|EH219280.1|EH219280
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|19936886|gb|BQ081053.1|BQ081053
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|192329859|gb|FK023363.1|FK023363
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|13791046|gb|BG653637.1|BG653637
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|193685060|gb|FK626542.1|FK626542
EST:     AATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: AATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|12688166|gb|BG154502.1|BG154502
EST:     TGACAGTGACAAAAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|18039409|gb|BM307712.1|BM307712
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|14011959|gb|BG726881.1|BG726881
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGAGCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|31308781|gb|CD393984.1|CD393984
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|21677203|gb|BQ629554.1|BQ629554
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|14206016|gb|BG839694.1|BG839694
EST:     TGNCAGTGACAAGAGAATCCCTGACATGACCATAATAANCAAGCAGCNTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCTACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|22540261|gb|BU090104.1|BU090104
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|15815288|gb|BI787563.1|BI787563
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|19937163|gb|BQ081176.1|BQ081176
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|8404039|gb|BE059673.1|BE059673
EST:     CTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: CTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|16105256|gb|BI892996.1|BI892996
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|19934967|gb|BQ079997.1|BQ079997
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|192329874|gb|FK023364.1|FK023364
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|7693239|gb|AW761334.1|AW761334
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTTGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|14012078|gb|BG727009.1|BG727009
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|31470247|gb|CD412215.1|CD412215
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
EST: gi|13252497|gb|BG363408.1|BG363408
EST:     TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTG                         GATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT
genomic: TGACAGTGACAAGAGAATCCCTGACATGACCATAATAAACAAGCAGCTTGgtaggtttac ... ctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccttaagattgtaacttacttttcttgttaatggtcattgcttctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACATATCAGCACAGGACATATGCTGAAGCCGTTAAGAAAGTCATTGCAAAACC
                                    tcattgcttctcctct  CT-rich tract
                 ttactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtttactcagtcgttaatttaaccatatttgaccccttaagattgtaacttacttttcttgttaatggtcattgcttctcctctcagGATGGAATCCTAAGACTTCACTTTGGGACCTGCTTGAATCCACTCTGACATATCAGCACAGGACATATGCTGAAGCCGTTAAGAAAGTCATTGCAAAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA