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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatagtgttattagcataactatggaatatagagtaaagcaactttgtgtgtgtctataacactttcaagctattgtttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG

Basic information

species Glycine max
transcript GLYMA19G04320.1
intron # 5
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|192308196|gb|FK002736.1|FK002736
EST:     ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|5677144|gb|AI938274.1|AI938274
EST:     GCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: GCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|208148465|gb|GD951131.1|GD951131
EST:     ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|193665950|gb|FK611337.1|FK611337
EST:     ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|208117357|gb|GD919055.1|GD919055
EST:     AACAAAGACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: AACAAAGACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|193719958|gb|FK650454.1|FK650454
EST:     ACTCAGTTCATGCAGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
EST: gi|208197576|gb|GD999805.1|GD999805
EST:     ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCAATATGTTGGTGGA
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCA-TATGTTGGTGGA
EST: gi|18733553|gb|BM527677.1|BM527677
EST:     ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG                         GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
genomic: ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGgtaaatagtg ... tttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtaaagcaactttgtgtgtgtctataacactttcaagctattgtttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG
                                        tattgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatagtgttattagcataactatggaatatagagtaaagcaactttgtgtgtgtctataacactttcaagctattgtttgatacagGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA