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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcttctttgctttctgttatttcattttctttcaaactattaatgtgctttttgttgtatatatttgaaatattaataaaaatgttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG

Basic information

species Glycine max
transcript GLYMA20G31750.1
intron # 1
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|193348171|gb|FK309883.1|FK309883
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|14991902|gb|BI317575.1|BI317575
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|4299521|gb|AI442916.1|AI442916
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|208101027|gb|GD898148.1|GD898148
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|208158506|gb|GD957419.1|GD957419
EST:     CTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: CTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|7326700|gb|AW620498.1|AW620498
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|21887069|gb|BQ740282.1|BQ740282
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|4306884|gb|AI443968.1|AI443968
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|27424733|gb|CA936253.1|CA936253
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAATCGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|208050888|gb|GD848953.1|GD848953
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|21600904|gb|BQ611235.1|BQ611235
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAT                         GTTGTAGAAATTGCTCCCAAAATTTAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|298191719|gb|HO035801.1|HO035801
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|31561311|gb|CD487149.1|CD487149
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|192308363|gb|FK002791.1|FK002791
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAGATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|120532246|gb|EH260379.1|EH260379
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|6845801|gb|AW348091.1|AW348091
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
EST: gi|10235113|gb|BE804001.1|BE804001
EST:     ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAG                         GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
genomic: ATTTGCCTCGTTTGGCAAAAACTGCTCAAATTTCACTTACCCCAAACGAGgtcttctttg ... gttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaatgtgctttttgttgtatatatttgaaatattaataaaaatgttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG
                                tattaat  putative branch site (score: 2)
          tttttgttgtatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcttctttgctttctgttatttcattttctttcaaactattaatgtgctttttgttgtatatatttgaaatattaataaaaatgttgttgcagGTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA