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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGTCTCTGAAGTCATATGTTAGTAGTCTAATCACAGTAAGAGAAACCTTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatatattatgcaattgcttctgttaaatgtcttgataattatctagtgtttggcctggcattgaatagtttgacatagatgcaatggcatgctt...

Basic information

species Glycine max
transcript GLYMA02G05520.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05520.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0023g03250.t01 (Vitis vinifera), 5'ss of exon 2
TTGAGTCTCTGAAGTCATATGTTAGTAGTCTAATCACAGTAAGAGAAACCTTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatatattatgcaattgcttctgttaaatgtcttgata-attatctagtgtttggcctggcattgaatagtttgacatagatgcaatggcatgctt
||||||||||||| || || ||||||||||| ||||  |||||||| ||  | ||||| |||||||||||||| ||||||||||||| ||| |||||||||| |  ||| ||  |     |   | |  |  |  |   ||||   ||| |  | | |   | ||  ||   | || |    |        | |  |    
TTGAGTCTCTGAAATCCTACGTTAGTAGTCTCATCAGTGTAAGAGAGACACTGCTGTCATCAGAGAAGCAATTTCAAACTATTGAGAGGCTTTTTGAACGgtcagtataaatagttttgctttctatagttgaaatgaagatatgctattttttttattatcaggtgtttttttgtgtattgtttgcatggttgtgttac-
















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|207767021|gb|GD736983.1|GD736983
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|254345901|gb|GR859548.1|GR859548
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|254345900|gb|GR859547.1|GR859547
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|7795664|gb|AW781061.1|AW781061
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|192334369|gb|FK025546.1|FK025546
EST:     TTACTGTTTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|57575454|gb|CX548429.1|CX548429
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
EST: gi|254321422|gb|GR824739.1|GR824739
EST:     TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACG                         GCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC
genomic: TTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatat ... tcttgagcagGCTAGTTGGAAAGACTACCCAATTGGAGGGTGAGAAAATGCAGAAAGAGGC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAGTCTCTGAAGTCATATGTTAGTAGTCTAATCACAGTAAGAGAAACCTTACTGTCTTCAGAGAAGCAATTCCAAACTATTGAGAAGCTGTTTGAACGgtaaacatatattatgcaattgcttctgttaaatgtcttgataattatctagtgtttggcctggcattgaatagtttgacatagatgcaatggcatgctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT