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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacaaagctaatgaattgaaatttctgccacgcacttaggtggtaatgattttctctcttttaaaattaataattccttccttttttttgtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGAGTGACAACTCCAAATATTATGATATTCTCGGGGTTTCCAAAAATGCCAG

Basic information

species Glycine max
transcript GLYMA07G14540.1
intron # 1
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|208239317|gb|GE037227.1|GE037227
EST:     TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
EST: gi|207801424|gb|GD775510.1|GD775510
EST:     TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
EST: gi|193334280|gb|FK299232.1|FK299232
EST:     TCTCTTCCTCCCTGGAAG-AAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
EST: gi|254341868|gb|GR853005.1|GR853005
EST:     TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
EST: gi|209702366|gb|BW656341.1|BW656341
EST:     TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
EST: gi|209709339|gb|BW678883.1|BW678883
EST:     TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCG                         TGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA
genomic: TCTCTTCCTCCCTGGAAGAAAAAGAAGAGTCACCGCTACGACGCCGTTCGgtatgctctt ... gtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgattttctctcttttaaaattaataattccttccttttttttgtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGAGTGACAACTCCAAATATTATGATATTCTCGGGGTTTCCAAAAATGCCAG
                    aattaat  putative branch site (score: 3)
                             ttccttcctttttttt  putative PPT
              ttttaaaattaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atacaaagctaatgaattgaaatttctgccacgcacttaggtggtaatgattttctctcttttaaaattaataattccttccttttttttgtgtgcgtagTGCTTTTTTGAGGTGCCACAGTCATGTTTGGGCGTGGTGGACCAAGGAGGAGTGACAACTCCAAATATTATGATATTCTCGGGGTTTCCAAAAATGCCAG

- - - -gctaatg
- - - - - - - - - - - tttctgc
- - - - - - - - - - - - - - -cacgcac
- - - - - - - - - - - - - - - - - - - -ggtggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattaa