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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggttttattttattttatttttaaattttaatacatataccagctttccttgcttgtctgttccagtgagtgctaaatctaaatatgtcttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGCGGCTTTCCATTTTTACTGGGACAAAAACTCTTCACTTGAGGTGTGTGTCTAGAGAAGACAGAG

Basic information

species Glycine max
transcript GLYMA18G01590.1
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|208242877|gb|GE038865.1|GE038865
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAG                         GTTTCTTCTGTTCGTTCCAGCAA
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCAGCAA
EST: gi|208281856|gb|GE080682.1|GE080682
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAG                         GTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAG
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAG
EST: gi|208078678|gb|GD876154.1|GD876154
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAG                         GTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGTCGGTCTTTTCCATT
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAG-CGG-CTTT-CCATT
EST: gi|207781698|gb|GD754081.1|GD754081
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAG                         GTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGTCGGTCTTTTCCATT
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAG-CGG-CTTT-CCATT
EST: gi|298186764|gb|HO037397.1|HO037397
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATT-GAAG                         GTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGCGGCTTTCCATTTTT
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGCGGCTTTCCATTTTT
EST: gi|193404372|gb|FK365281.1|FK365281
EST:     ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAG                         GTTTCTTCTGTTCGTTCCAAGACAAAGTCTGATGATAAGCGGCTTTCCAT
genomic: ACAGTAACAACGGGAAGCAATGCAAACCGTTCGGTGAGATACATTTGAAGgtttgttctt ... ttgttcacagGTTTCTTCTGTTCGTTCCA-G-CAA-GTCTGATGATAAGCGGCTTTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccttgcttgtctgttccagtgagtgctaaatctaaatatgtcttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGCGGCTTTCCATTTTTACTGGGACAAAAACTCTTCACTTGAGGTGTGTGTCTAGAGAAGACAGAG
                                           tcttgttc  CT-rich tract
                             taaatctaaatatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggttttattttattttatttttaaattttaatacatataccagctttccttgcttgtctgttccagtgagtgctaaatctaaatatgtcttgttcacagGTTTCTTCTGTTCGTTCCAGCAAGTCTGATGATAAGCGGCTTTCCATTTTTACTGGGACAAAAACTCTTCACTTGAGGTGTGTGTCTAGAGAAGACAGAG

- - - - - - - - - - - - - - - - - catatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgagtgc