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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttaaaagttggttcccatctccctagcggcctagccctgcaaaatgaaaatgagagtacactggttattatggttttcatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT

Basic information

species Glycine max
transcript GLYMA11G07200.2
intron # 3
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|209727268|gb|BW655253.1|BW655253
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|209728976|gb|BW655019.1|BW655019
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|209698445|gb|BW667242.1|BW667242
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|11412754|gb|BF424765.1|BF424765
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAGACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|213603451|gb|DB970492.1|DB970492
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|18039679|gb|BM307973.1|BM307973
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|213618444|gb|DB963373.1|DB963373
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|8826552|gb|BE210282.1|BE210282
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
EST: gi|26058824|gb|CA801738.1|CA801738
EST:     AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA
genomic: AGCCTGGCGAGCCAGAATACGCTCCACCTGTCCCAGAAACTGAGACTCCTgtaatcttta ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaaatgagagtacactggttattatggttttcatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT
                                        ttttgat  putative branch site (score: 4)
                     ttattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttaaaagttggttcccatctccctagcggcctagccctgcaaaatgaaaatgagagtacactggttattatggttttcatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTTGAGAAGGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT