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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccagacacaccaaccatggatgtaacaagcttacatgtgagaaaaagtattcctctaatctttcattcttctctccattaaatgttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAATCCTTCAGAAAATTGATCCTAGATGGATCTGCCAAAGATCATTTATTGT

Basic information

species Glycine max
transcript GLYMA05G33640.1
intron # 2
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|151396212|gb|EV266089.1|EV266089
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         CGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|18848901|gb|BM568011.1|BM568011
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|151406975|gb|EV276790.1|EV276790
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|193724982|gb|FK659694.1|FK659694
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGG
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGG
EST: gi|120534060|gb|EH262193.1|EH262193
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298163376|gb|HO012109.1|HO012109
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|10237583|gb|BE806471.1|BE806471
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|207824553|gb|GD793465.1|GD793465
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298197299|gb|HO044778.1|HO044778
EST:     CTTCTCAAAAATCTACACTGCCGAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|254314578|gb|GR829571.1|GR829571
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298189993|gb|HO032114.1|HO032114
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298178541|gb|HO024276.1|HO024276
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298171038|gb|HO016070.1|HO016070
EST:     TTCTCAAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: TTCTCAAAAA-TCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|9987619|gb|BE661727.1|BE661727
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|192299309|gb|FG990734.1|FG990734
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|298170795|gb|HO015771.1|HO015771
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGATATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|192328997|gb|FK019696.1|FK019696
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|192301322|gb|FG990212.1|FG990212
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
EST: gi|308098252|gb|HO759993.1|HO759993
EST:     CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTG                         TGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA
genomic: CTTCTCAAAAATCTACACTGCCAAGAGCCTCCAAAAGCAATGGTATAGTGgtgagtccag ... ttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaaaagtattcctctaatctttcattcttctctccattaaatgttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAATCCTTCAGAAAATTGATCCTAGATGGATCTGCCAAAGATCATTTATTGT
             ctctaat  putative branch site (score: 3)
                                     attaaatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtccagacacaccaaccatggatgtaacaagcttacatgtgagaaaaagtattcctctaatctttcattcttctctccattaaatgttggttgcagTGTTGGGCAACCATGACTACAGGGGTGATGTTGAAGCTCAATTGAATCCAATCCTTCAGAAAATTGATCCTAGATGGATCTGCCAAAGATCATTTATTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA