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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttataaatttctggaaatctatgcattaatgttgttgatacttaagatttttttgctttctttctgggatatgttatattgacttcacgtagtttctaatgtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG

Basic information

species Glycine max
transcript GLYMA12G15470.2
intron # 7
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|208212469|gb|GE011822.1|GE011822
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
EST: gi|10237492|gb|BE806380.1|BE806380
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
EST: gi|208284980|gb|GE086942.1|GE086942
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
EST: gi|208074942|gb|GD875439.1|GD875439
EST:     TGATAATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
genomic: TGAT-ATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
EST: gi|193690271|gb|FK634568.1|FK634568
EST:     CTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
genomic: CTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
EST: gi|193345633|gb|FK313744.1|FK313744
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTA
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTA
EST: gi|208096558|gb|GD892867.1|GD892867
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTATTTCCTGGAGAAAAACCAAGTGGACCAACTTGTGGAAAATTATCA
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatt ... gtttgtatagCCATTATTTCCTGGAGAAAA-CCAAGTGGACCAACTTGTGGAAA-TTATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctttctgggatatgttatattgacttcacgtagtttctaatgtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG
                                      ttctaat  putative branch site (score: 2)
             atatgttatattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttataaatttctggaaatctatgcattaatgttgttgatacttaagatttttttgctttctttctgggatatgttatattgacttcacgtagtttctaatgtttgtatagCCATTATTTCCTGGAGAAAACCAAGTGGACCAACTTGTGGAAATTATCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA