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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttaacttccaacactcccttggcatctttttaaattttaattatgtatttctatatgaataatacttatgtgctctgttctgtttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCAAAACCTTTTATTTTGAAGAAGCAACATGAAGCT

Basic information

species Glycine max
transcript GLYMA11G12120.1
intron # 14
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|193729643|gb|FK666815.1|FK666815
EST:     AGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTG
genomic: AGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAA-TCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTG
EST: gi|193568385|gb|FK523476.1|FK523476
EST:     AGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATACTGCAG                         CTTGTGCTTTTGCTTCTGGCTG
genomic: AGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAAT-CTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTG
EST: gi|58021625|gb|CX708366.1|CX708366
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
EST: gi|254323448|gb|GR840145.1|GR840145
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
EST: gi|193571235|gb|FK529050.1|FK529050
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTG
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTG
EST: gi|207712323|gb|GD692793.1|GD692793
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCA
EST: gi|193534153|gb|FK488650.1|FK488650
EST:     CAACNCTTTGCTGGTCNGAAAAATACTGCAG                         CTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCC
genomic: CAACTCTTTGCTGGTCAGAAAAAT-CTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCC
EST: gi|193719056|gb|FK651304.1|FK651304
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTG
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTG
EST: gi|193633007|gb|FK580155.1|FK580155
EST:     CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAG                         CTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTG
genomic: CAGATGATTTGGGTGAGAACCAACTCTTTGCTGGTCAGAAAAATCTGCAGgttggttaac ... ttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattatgtatttctatatgaataatacttatgtgctctgttctgtttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCAAAACCTTTTATTTTGAAGAAGCAACATGAAGCT
 ttttaat  putative branch site (score: 3)
                                  ctctgttctgttttt  putative PPT
       tatttctatatgaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggttaacttccaacactcccttggcatctttttaaattttaattatgtatttctatatgaataatacttatgtgctctgttctgtttttaaccagCTTGTGCTTTTGCTTCTGGCTGTTATCTCTGTGCCCTGGATGCTATTGCCAAAACCTTTTATTTTGAAGAAGCAACATGAAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC