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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtttgtttgtagaatttattatttgaatatatttattgtccaagtttgacaactaatcagctataacattggtttgacatgtaatttttgataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCACTGGTATGAAAATTACAAGAAGGCAGATTGGACTAGGCATGATTCAACAA

Basic information

species Glycine max
transcript GLYMA07G14540.2
intron # 4
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|22521806|gb|BU080617.1|BU080617
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|298173661|gb|HO016997.1|HO016997
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|193567957|gb|FK524294.1|FK524294
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|254327987|gb|GR834952.1|GR834952
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|209709339|gb|BW678883.1|BW678883
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|33388612|gb|CA851819.1|CA851819
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|193645503|gb|FK590443.1|FK590443
EST:     GAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: GAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|254341868|gb|GR853005.1|GR853005
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAG-TGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|7925973|gb|AW831999.1|AW831999
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|192328757|gb|FK022543.1|FK022543
EST:     ATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAGCAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|120491272|gb|EH219439.1|EH219439
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|13479325|gb|BG508668.1|BG508668
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|254327121|gb|GR836730.1|GR836730
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|209702366|gb|BW656341.1|BW656341
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|18040211|gb|BM308505.1|BM308505
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|298195498|gb|HO043889.1|HO043889
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|298186346|gb|HO036979.1|HO036979
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|208204724|gb|GE003651.1|GE003651
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCTAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|298172387|gb|HO019427.1|HO019427
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|192322850|gb|FK014781.1|FK014781
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATACCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|163923429|gb|EH038356.1|EH038356
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|18732460|gb|BM527057.1|BM527057
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
EST: gi|26058372|gb|CA801286.1|CA801286
EST:     ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGG                         GAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC
genomic: ACAAAGAAACTATCTCTTTCTAGAAACGTATTCTGCTCAAAATGTAAAGGgtatggactt ... gataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgacaactaatcagctataacattggtttgacatgtaatttttgataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCACTGGTATGAAAATTACAAGAAGGCAGATTGGACTAGGCATGATTCAACAA
                                  atgtaatttttgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtttgtttgtagaatttattatttgaatatatttattgtccaagtttgacaactaatcagctataacattggtttgacatgtaatttttgataaatcagGAAAGGTTCAAAAAGTGGAACAGCTGGTAGGTGTTTTGGATGCCAAGGCACTGGTATGAAAATTACAAGAAGGCAGATTGGACTAGGCATGATTCAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT