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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagcacaagtcatcccctacacactctcactcttttagcaatgtaatatttttttctctctaatatatcatgactagttgtgaattgccctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA

Basic information

species Glycine max
transcript GLYMA18G46390.1
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|7284889|gb|AW597376.1|AW597376
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|213618074|gb|DB963707.1|DB963707
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|151402864|gb|EV272677.1|EV272677
EST:     GGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: GGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|192303883|gb|FG998235.1|FG998235
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|213617059|gb|DB961539.1|DB961539
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|16348803|gb|BI974398.1|BI974398
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|192298879|gb|FG987624.1|FG987624
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|193590717|gb|FK544590.1|FK544590
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|298189249|gb|HO037652.1|HO037652
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|192306997|gb|FG999988.1|FG999988
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCCTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|209717163|gb|BW657626.1|BW657626
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|197664690|gb|FD480363.1|FD480363
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|193455949|gb|FK417042.1|FK417042
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAA
EST: gi|31469416|gb|CD411444.1|CD411444
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|192306982|gb|FG999987.1|FG999987
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCCTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|6727118|gb|AW311472.1|AW311472
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|151394726|gb|EV264597.1|EV264597
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|192299912|gb|FG991786.1|FG991786
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|151402943|gb|EV272756.1|EV272756
EST:     TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATACCTTGGTGAAGAAAAGCTCAA
genomic: TCTGAGAATGGTCTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
EST: gi|31467953|gb|CD409981.1|CD409981
EST:     CTGAGAAT-GTCTTTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCA                         GAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
genomic: CTGAGAATGGTC-TTGTGGCTCACAAGGAAGGAAAGCTCATTGGAACTCAggtacaacac ... cctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatatttttttctctctaatatatcatgactagttgtgaattgccctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA
              ctctaat  putative branch site (score: 3)
                                         ttgccctcttttc  putative PPT
                 taatatatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttagcacaagtcatcccctacacactctcactcttttagcaatgtaatatttttttctctctaatatatcatgactagttgtgaattgccctcttttcaGAGCTTGAAGTCATTCCTTGGTGAAGAAAAGCTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - catcccc
- - - - - - - - - - -cacactc
- - - - - - - - - - - - - - - - - - - - caatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agttgtg