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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagcatagctcaaacaatatagttttacactgatatttttagttagatgggcactcaagtcttgaccatgaattcattttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAATGATGATG

Basic information

species Glycine max
transcript GLYMA02G08440.1
intron # 4
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|7042420|gb|AW472314.1|AW472314
EST:     CTGCAGCATCTGATATGGACTGTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTG
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTG
EST: gi|254343607|gb|GR857363.1|GR857363
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|8402677|gb|BE058311.1|BE058311
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTNTGATGCTGCAGGCGAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|298162968|gb|HO011701.1|HO011701
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|192302805|gb|FG998487.1|FG998487
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGANNNNNNN                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|9985951|gb|BE659957.1|BE659957
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|193599852|gb|FK551591.1|FK551591
EST:     CTGGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CT-GCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|298172800|gb|HO020354.1|HO020354
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|192302804|gb|FG998486.1|FG998486
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
EST: gi|24205344|gb|BU964597.1|BU964597
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT
genomic: CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtagca ... ttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttttagttagatgggcactcaagtcttgaccatgaattcattttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAATGATGATG
                          tcttgac  putative branch site (score: 3)
                                       ttcattttct  putative PPT
                                     aattcattttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtagcatagctcaaacaatatagttttacactgatatttttagttagatgggcactcaagtcttgaccatgaattcattttctatgcagAAGATGAGCATGGGAGGGGGTGAGGGATTGGATTTTGATGCTGCAGGCAATGATGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG