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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgctggtgttctttttcctgttaccttgttcttttgaaattgttactattttattcaacatttgatgcttgcccttgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAGGAAAAAAAG

Basic information

species Glycine max
transcript GLYMA17G13850.1
intron # 23
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|254343133|gb|GR859295.1|GR859295
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|254327049|gb|GR836658.1|GR836658
EST:     AGATGCAGTTGCAAGTATGACCGATGGATATTCCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGA
genomic: AGATGCAGTTGCAAGTATGACCGATGGATATTCC-GGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGA
EST: gi|24136129|gb|BU926639.1|BU926639
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|7588236|gb|AW704036.1|AW704036
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|15203099|gb|BI425867.1|BI425867
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTA
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTA
EST: gi|22933046|gb|BU550185.1|BU550185
EST:     GTATGACCGATGNATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGNNTATTAAAGAGATATTAGAAAAG
genomic: GTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|13252456|gb|BG363367.1|BG363367
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|22522568|gb|BU081379.1|BU081379
EST:     TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAG
EST: gi|163920680|gb|EH039961.1|EH039961
EST:     TAGATGCAGTTGCAGGTATGACCGATGGATATTCCGGAAGTGATCTTAAG                         AATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATA
genomic: TAGATGCAGTTGCAAGTATGACCGATGGATATTCCGGAAGTGATCTTAAGgttgctggtg ... tgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgaaattgttactattttattcaacatttgatgcttgcccttgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAGGAAAAAAAG
                             atttgat  putative branch site (score: 5)
                                     cttgccctt  CT-rich tract
      aaattgttactatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgctggtgttctttttcctgttaccttgttcttttgaaattgttactattttattcaacatttgatgcttgcccttgtactgcagAATTTGTGTGTAACTGCAGCACATCGGCCTATTAAAGAGATATTAGAAAAGGAAAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA