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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattgttgtgtatctatattaattgaccatcttttctttataatccttctggttacaaagttatttaaaatcatatgtagttagcgatagtctcttgtttttatactgttttctccaagatattccaattttgagtttttgttttcttctacttgttttttaacagGTCCAGATCATATGATGTTTGAG

Basic information

species Glycine max
transcript GLYMA09G08150.2
intron # 3
splice site 3'
intron type U2

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|14258546|gb|BG881454.1|BG881454
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|208083788|gb|GD881736.1|GD881736
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|193367841|gb|FK333423.1|FK333423
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|208034630|gb|GD836794.1|GD836794
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|193521194|gb|FK480305.1|FK480305
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|254341577|gb|GR852714.1|GR852714
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|16347961|gb|BI973556.1|BI973556
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|12489527|gb|BG043049.1|BG043049
EST:     TTGTGTTGGGCTAA-CAGACAATTGAATGGATCAATTATACCATCACAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|6668020|gb|AW279471.1|AW279471
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|193455585|gb|FK418764.1|FK418764
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTGTACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG
EST: gi|27427065|gb|CA938585.1|CA938585
EST:     TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAAC                         GTCCAGATCATATGATGTTTGAG
genomic: TTGTGTTGGGCTAAGCAGACAATTGAATGGATCAATTATACCATCAGAACgtaagattgt ... tttttaacagGTCCAGATCATATGATGTTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctccaagatattccaattttgagtttttgttttcttctacttgttttttaacagGTCCAGATCATATGATGTTTGAG
                        tttttgttttcttcta  CT-rich tract
 aattttgagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagattgttgtgtatctatattaattgaccatcttttctttataatccttctggttacaaagttatttaaaatcatatgtagttagcgatagtctcttgtttttatactgttttctccaagatattccaattttgagtttttgttttcttctacttgttttttaacagGTCCAGATCATATGATGTTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA