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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattatctggcatttatgttgtttaattaacttgttttattttggcttttgatcgccaatattttttagattgctaatgttatttatatttgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATGGAACTCTGGCACAATTTTTGAAGA

Basic information

species Glycine max
transcript GLYMA02G46200.1
intron # 6
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|23064235|gb|BU579008.1|BU579008
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACTGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|13481968|gb|BG511311.1|BG511311
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|193410849|gb|FK378936.1|FK378936
EST:     CCAGAGGCAACTGTTCGAACTTGGGGGCGGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: CCAGAGGCAACTGTTCGAACTTGGGGGC-GTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|13251924|gb|BG362827.1|BG362827
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|213615236|gb|DB965044.1|DB965044
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGGATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|213616511|gb|DB965709.1|DB965709
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|209721887|gb|BW680046.1|BW680046
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|120491274|gb|EH219441.1|EH219441
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|193513668|gb|FK467884.1|FK467884
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCCGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|208079599|gb|GD875787.1|GD875787
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAAT
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAAT
EST: gi|209726695|gb|BW672449.1|BW672449
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|298170020|gb|HO018644.1|HO018644
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTCTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|7924360|gb|AW830386.1|AW830386
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
EST: gi|298174924|gb|HO014841.1|HO014841
EST:     TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTG                         GAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG
genomic: TCCAGAGGCAACTGTTCGAACTTGGGGGCGTCTATTTTCTTCAGAAAGTGgtgagatatt ... tgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgatcgccaatattttttagattgctaatgttatttatatttgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATGGAACTCTGGCACAATTTTTGAAGA
                          tgctaat  putative branch site (score: 2)
            aatattttttagattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cattatctggcatttatgttgtttaattaacttgttttattttggcttttgatcgccaatattttttagattgctaatgttatttatatttgtaataaagGAGACACGGTTGATGTTGTGGTTCCTCCTTTGGCTGAATCTATCTCTGATGGAACTCTGGCACAATTTTTGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - ggcattt
- - - - - - - - tgttgtt
- - - - - - - - - - - - - - - - - - - - - - gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctaatg