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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtttggcttgttataagtttactttgttttgccataatatatgtggcttttgacattcaaactatccattcatgttgtgttttatgatgtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATTTCGTAACTTTGAAGAGGAAATGAGACAACCAGGGGTTTGGGAGTCGGAA

Basic information

species Glycine max
transcript GLYMA16G18450.1
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|298194223|gb|HO040871.1|HO040871
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|120496126|gb|EH224293.1|EH224293
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|208196427|gb|GD993126.1|GD993126
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|193379481|gb|FK343583.1|FK343583
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|16104800|gb|BI892540.1|BI892540
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|120495145|gb|EH223312.1|EH223312
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|208075195|gb|GD877666.1|GD877666
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCT
EST: gi|193626326|gb|FK573586.1|FK573586
EST:     CTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTAGTAATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCAT
genomic: CTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCT-GT-ATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCAT
EST: gi|298195719|gb|HO044110.1|HO044110
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
EST: gi|207801239|gb|GD773351.1|GD773351
EST:     CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGG                         AGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT
genomic: CCCTTGCCTGTAATAAGGGAAACTCTCTACGACGACGCGATGCTGTATGGgtatgttttg ... gtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcttttgacattcaaactatccattcatgttgtgttttatgatgtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATTTCGTAACTTTGAAGAGGAAATGAGACAACCAGGGGTTTGGGAGTCGGAA
    ttttgac  putative branch site (score: 3)
 ttttatgatgtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtttggcttgttataagtttactttgttttgccataatatatgtggcttttgacattcaaactatccattcatgttgtgttttatgatgtttatgcagAGCATCAAGGGCTGGGCATCGTTCACATGAACCGAGCTCCCTAGTTGCATTTCGTAACTTTGAAGAGGAAATGAGACAACCAGGGGTTTGGGAGTCGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - -gcttgtt
- - - - - - - - - - - - - - ttttgcc
- - - - - - - - - - - - - - - - - - - - - - gtggctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - acattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtg