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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatatgctttctagagatgatggttctccaactaatttgtttttggatggcatatatcttccttaacacaaatgactgatgcaattctatggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGGCTTGGGAAGAAAGTGAAAAATCCAAAGCAGAGAATAA

Basic information

species Glycine max
transcript GLYMA07G07970.1
intron # 2
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|4397090|gb|AI496087.1|AI496087
EST:     ATACCAGAACCTGTAAAAAAGAACCGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: ATACCAGAACCTGTAAAAAAGAAC-GCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
EST: gi|20448471|gb|BQ252595.1|BQ252595
EST:     GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
EST: gi|298165824|gb|HO008795.1|HO008795
EST:     GACACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
EST: gi|298191976|gb|HO036058.1|HO036058
EST:     GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGGGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
EST: gi|7028192|gb|AW457975.1|AW457975
EST:     GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGAT
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGAT
EST: gi|298179051|gb|HO024786.1|HO024786
EST:     GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
EST: gi|7283804|gb|AW596406.1|AW596406
EST:     GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAG                         ACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG
genomic: GATACCAGAACCTGTAAAAAAGAACGCCTCAGGTGGATCCCTTGATAGAGgttggtgtta ... tggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatggcatatatcttccttaacacaaatgactgatgcaattctatggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGGCTTGGGAAGAAAGTGAAAAATCCAAAGCAGAGAATAA
                             gactgat  putative branch site (score: 3)
       atatatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaatatgctttctagagatgatggttctccaactaatttgtttttggatggcatatatcttccttaacacaaatgactgatgcaattctatggtgtacagACATTGCTCTTGCAGAAATAGAGAAAGAGAAACGATTGTCTAATGTGAAGGCTTGGGAAGAAAGTGAAAAATCCAAAGCAGAGAATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - -tgctttc
- - - - - - - - gatgatg
- - - - - - - - - - - - - - ccaacta
- - - - - - - - - - - - - - - - - - - - - - tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatgc