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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatccctagcaagttaatgaagctaaagtttttaaattgtataatttcatgaattttgttgctaagtggaatttaatagttcttacttgcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG

Basic information

species Glycine max
transcript GLYMA11G36990.3
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|254316561|gb|GR828098.1|GR828098
EST:     AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATG                         GGTGCTAGGCCTGGATTTTTTCACGATGACA-GTCACAGAAAAAAG
genomic: AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
EST: gi|193303415|gb|FK271601.1|FK271601
EST:     TTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATG                         GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
genomic: TTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
EST: gi|9899202|gb|BE608100.1|BE608100
EST:     AACTGTTGGATCGGTATGGGCTGGGCATCCCTATCGGACCTGNGACAATG                         GGTGCTAGGCCTGGATTTTT-CACGATGACA-GTCACAGAAAAA-G
genomic: AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
EST: gi|192328242|gb|FK020461.1|FK020461
EST:     AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATG                         GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
EST: gi|254331208|gb|GR845787.1|GR845787
EST:     AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATG                         GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
EST: gi|192328139|gb|FK022848.1|FK022848
EST:     AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATG                         GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAA
genomic: AACTGTTGGATCGGTATGGCCTGGGCATCCCTATCGGACCTGGGACAATGgtacgagact ... gcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcatgaattttgttgctaagtggaatttaatagttcttacttgcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG
                                    ttcttac  putative branch site (score: 2)
                                          cttgctt  CT-rich tract
                          aatttaatagttctta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attatccctagcaagttaatgaagctaaagtttttaaattgtataatttcatgaattttgttgctaagtggaatttaatagttcttacttgcttgggcagGGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG

- - -ccctagc
- - - - - - - - -aatgaag
- - - - - - - - - - - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct