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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGGCTATAAAAGCTGCCTACCCAGATATTCAAATTATCTCAAATTGTGATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataatgttctcacattaattacttgaactttcattttgttgatttaactttaacaagtgtgttttattttttcatttgtcaacttattatcctttttaatgttttatcttttattag

Basic information

species Glycine max
transcript GLYMA19G30460.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G30460.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os11g03730.3 (Oryza sativa), 5'ss of exon 12
TGAGGCTATAAAAGCTGCCTACCCAGATATTCAAATTATCTCAAATTGTGATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaa--tgataatgttctcacattaattacttgaactttcattttgttgatttaactttaacaagtgtgttttattttttcatttgtcaacttattatcctttttaatgttttatcttttattag
| | |||||||  |  ||||| ||||| |||||||| || |||||||||||||||||   ||  ||| |  | || || |||||||| |  ||||| |||||||  |  | ||  |||    ||   | ||  | |  |  |  |  |        | | |||| |||      ||||  ||||| | || ||   |   ||  |  | | |             
TAATGCTATAAGGGAGGCCTATCCAGACATTCAAATGATTTCAAATTGTGATGCTTCATCAAGTCCACTTGACCATCCTGCTGATTTATATGATTTCCATgtaaactactcatcctcttgagttgtgttctccagcacttctcattct-------ttgtcacaaatgtcaaggcttttcccatttattaaattgaaacaattccttttttctag-----------
















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|193515777|gb|FK473353.1|FK473353
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193669033|gb|FK614055.1|FK614055
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193618949|gb|FK569363.1|FK569363
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193386273|gb|FK349451.1|FK349451
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|208154130|gb|GD956163.1|GD956163
EST:     AAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: AAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193471512|gb|FK436613.1|FK436613
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|208052506|gb|GD851341.1|GD851341
EST:     ATGCTTCCAGGAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193390214|gb|FK355448.1|FK355448
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193584136|gb|FK540284.1|FK540284
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|208058249|gb|GD860254.1|GD860254
EST:     ANGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACGTGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193703732|gb|FK640934.1|FK640934
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|193534142|gb|FK492993.1|FK492993
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAG
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAG
EST: gi|193703286|gb|FK638262.1|FK638262
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|207812392|gb|GD785306.1|GD785306
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTACTAAGTTCGACAAC
EST: gi|208050776|gb|GD848925.1|GD848925
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTACCAAATGACATGTTTT
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCT-CCAA-TGACATGTTTT
EST: gi|193423600|gb|FK387265.1|FK387265
EST:     ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCAT                         ACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTAC
genomic: ATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataa ... cttttattagACATATCCAAGCTCCAATGACATGTTTTCTCTGTTTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGGCTATAAAAGCTGCCTACCCAGATATTCAAATTATCTCAAATTGTGATGCTTCCAGAAAACCATTAAATCACCCGGCTGATTTGTTCGATTTTCATgtaatgataatgttctcacattaattacttgaactttcattttgttgatttaactttaacaagtgtgttttattttttcatttgtcaacttattatcctttttaatgttttatcttttattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT