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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggggaaaaaataaactagctaggattgtatcgtgtatttacaacataattttatcgaattctgatgctgttggttgtgtgtatttggttgtgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGGATTCCCGATGGACCAATTTTTTTGGTAATAGGTGGTGAAGGTATATTGA

Basic information

species Glycine max
transcript GLYMA16G24290.1
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|193415179|gb|FK380097.1|FK380097
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAAACGTTACTATGAGT
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAA-CGTTACTATGAGT
EST: gi|298173654|gb|HO016990.1|HO016990
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|193332838|gb|FK299156.1|FK299156
EST:     ACACTCCGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAAACGTTAACTATGAGTTTCTA
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAA-CGTTA-CTATGAGTTTCTA
EST: gi|19053252|gb|BM731919.1|BM731919
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|17153445|gb|BM143378.1|BM143378
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|193356777|gb|FK320099.1|FK320099
EST:     ACACTCCGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTA
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTA
EST: gi|192295160|gb|FG986879.1|FG986879
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|19348837|gb|BM893369.1|BM893369
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|193401253|gb|FK370168.1|FK370168
EST:     ACACTCCGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTAACTATGAGTTTCTA
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTA-CTATGAGTTTCTA
EST: gi|254323220|gb|GR840025.1|GR840025
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGG
EST: gi|193587923|gb|FK543504.1|FK543504
EST:     ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTAT                         GATCACCGACAATTCCGGCAACGTTACTATGAGTT
genomic: ACACTCAGGAGCTCTGGTTCGACCAAACCCTCGATCACTTCTCTCCCTATgtatctcctt ... tgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattttatcgaattctgatgctgttggttgtgtgtatttggttgtgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGGATTCCCGATGGACCAATTTTTTTGGTAATAGGTGGTGAAGGTATATTGA
             ttctgat  putative branch site (score: 3)
                                 tgtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggggaaaaaataaactagctaggattgtatcgtgtatttacaacataattttatcgaattctgatgctgttggttgtgtgtatttggttgtgccctgcagGATCACCGACAATTCCGGCAACGTTACTATGAGTTTCTAGACTATTTCCGGATTCCCGATGGACCAATTTTTTTGGTAATAGGTGGTGAAGGTATATTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtg