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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttttttcctgccctcccttcatatgaaccttgttatttcaattcctgcttttttcttatgcaatacatgggttacttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTAGTGCAAAAGAAGACATCAATGTTGTTCGTTGGGAACAGTGCAAACAGTT

Basic information

species Glycine max
transcript GLYMA02G45610.1
intron # 9
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|192323691|gb|FK015997.1|FK015997
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATA
EST: gi|207780812|gb|GD754301.1|GD754301
EST:     TGCTACCGAGGAGAGANATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|193328139|gb|FK293376.1|FK293376
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCT
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTA-GGGGAAGATGGCAAGATAGTAGGCGCTCTTCT
EST: gi|4282637|gb|AI440556.1|AI440556
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|208153997|gb|GD953958.1|GD953958
EST:     ACCGTAGGTAGTAGATTATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CCATTGCTTCTGAACTTAGGGG
genomic: ACCG-AGG-AG-AGAT-ATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGG
EST: gi|193377911|gb|FK341519.1|FK341519
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|298181814|gb|HO025989.1|HO025989
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|208122469|gb|GD921803.1|GD921803
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|208179591|gb|GD973594.1|GD973594
EST:     TGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|193406246|gb|FK370585.1|FK370585
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATCCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|58023254|gb|CX709995.1|CX709995
EST:     GCTACCCGAGGAGAGATATGAAAAGATCCTTGACATGATTCNTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: GCTA-CCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|19271087|gb|BM887343.1|BM887343
EST:     TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
genomic: TGCTACCGAGGAGAGATATGAAAAGATCCTTGACATGATTCCTGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTA
EST: gi|207792263|gb|GD764169.1|GD764169
EST:     ATGAAAAGATCCTTGACATGATTCCTTGATGAAT                         CTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCT
genomic: ATGAAAAGATCCTTGACATGATTCC-TGATGAATgtactttttt ... acttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttatttcaattcctgcttttttcttatgcaatacatgggttacttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTAGTGCAAAAGAAGACATCAATGTTGTTCGTTGGGAACAGTGCAAACAGTT
                                           ttactttt  CT-rich tract
                    ttttttcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttttttttcctgccctcccttcatatgaaccttgttatttcaattcctgcttttttcttatgcaatacatgggttacttttgcagCTATTGCTTCTGAACTTAGGGGAAGATGGCAAGATAGTAGGCGCTCTTCTAGTGCAAAAGAAGACATCAATGTTGTTCGTTGGGAACAGTGCAAACAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG