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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgttttagttcacaatggttctaattattcctgccttatttgggtttcatttcctaagtcttgttggtttgatatttaacataattttttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTGGGCCATACTGCACCAGCACAGGCAGCAAGTTTACTTCTAGTAGGCCCCT

Basic information

species Glycine max
transcript GLYMA06G15280.2
intron # 4
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|4313494|gb|AI460613.1|AI460613
EST:     GTTTCATAGCTGCTGTAATAGCAGTTTGGAGCACAGCCCTGCAACAGTAT                         TACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG
genomic: GTTTCATAGCTGCTGTAATAGCAGTTTGGAGCACAGCCCTGCAACAGTATgtaagtaaca ... tttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG
EST: gi|151396657|gb|EV266530.1|EV266530
EST:     GTTTCATAGCTGCTGTAATAGCAGTTTGGAGCACAGCCCTGCAACAGTAT                         TACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG
genomic: GTTTCATAGCTGCTGTAATAGCAGTTTGGAGCACAGCCCTGCAACAGTATgtaagtaaca ... tttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG
EST: gi|14990478|gb|BI316151.1|BI316151
EST:     GTTTCATAGCTGCCGTAATAGCAGTCTGGAGCACAGCCCTGCAACAGTAT                         TACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG
genomic: GTTTCATAGCTGCTGTAATAGCAGTTTGGAGCACAGCCCTGCAACAGTATgtaagtaaca ... tttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttcatttcctaagtcttgttggtttgatatttaacataattttttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTGGGCCATACTGCACCAGCACAGGCAGCAAGTTTACTTCTAGTAGGCCCCT
                               atttaac  putative branch site (score: 3)
                                          tttttttt  putative PPT
                     ttggtttgatatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acttgttttagttcacaatggttctaattattcctgccttatttgggtttcatttcctaagtcttgttggtttgatatttaacataattttttttggcagTACGTGCATTTTCTTCAGAGGAAGTATTCTATTGGGTCATTTAACTTGTTGGGCCATACTGCACCAGCACAGGCAGCAAGTTTACTTCTAGTAGGCCCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG