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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatttttaatctctaatgcttttctttttttcttcagatggatgggtttcagagggaaagccacgcttatgtttattgatttcctctcatctgctattgttcttatgtttcctttccttcctaaaacttccctccatgacattcttgatcatccagtcatgcatagttgttttcatttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAAACAGCACGTTGGTCCAG

Basic information

species Glycine max
transcript GLYMA20G31860.1
intron # 9
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|193433649|gb|FK403161.1|FK403161
EST:     GTAAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
genomic: GT-AAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
EST: gi|193371931|gb|FK336492.1|FK336492
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
EST: gi|193422441|gb|FK387562.1|FK387562
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
EST: gi|208127823|gb|GD924015.1|GD924015
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTG
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTG
EST: gi|254328533|gb|GR832905.1|GR832905
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACAAACATACAAGAAA
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA
EST: gi|207801164|gb|GD774172.1|GD774172
EST:     AGTAAA-TATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTG
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTG
EST: gi|5760781|gb|AI966144.1|AI966144
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAA
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAA
EST: gi|254328534|gb|GR832906.1|GR832906
EST:     AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAG                         GAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACAAACATACAAGAAA
genomic: AGTAAAATATCCTGGTGTTGCTAAAGGGTTATACGTTGCTTCTGAATCAGgttattttta ... tttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctccatgacattcttgatcatccagtcatgcatagttgttttcatttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAAACAGCACGTTGGTCCAG
            tcttgat  putative branch site (score: 4)
                                       ttttcattt  putative PPT
                                       ttttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttatttttaatctctaatgcttttctttttttcttcagatggatgggtttcagagggaaagccacgcttatgtttattgatttcctctcatctgctattgttcttatgtttcctttccttcctaaaacttccctccatgacattcttgatcatccagtcatgcatagttgttttcatttgaaccagGAAAACCAGCACTCAGTGTAGTGGACATTCTAGAGACGAACATACAAGAAAACAGCACGTTGGTCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA