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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattttgttttctgttatcattggaattcaccttttacttgttagattcctattttgaagatggaacattctttcaattcccatttctttgttttaaatttcttgttaaaagaaactttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGGAAGTAACTTGGAGGGAACAATTCAGCAAATCCTTGACATGGGTGGAGGA

Basic information

species Glycine max
transcript GLYMA08G32090.1
intron # 5
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|151411154|gb|EV280965.1|EV280965
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         --G-CCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|254335594|gb|GR847122.1|GR847122
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         ---GCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|151408744|gb|EV278552.1|EV278552
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         --G-CCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|192313583|gb|FK004165.1|FK004165
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         CAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|16995818|gb|BM085190.1|BM085190
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         ---GCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|192313582|gb|FK004164.1|FK004164
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         CAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
EST: gi|193514445|gb|FK467933.1|FK467933
EST:     CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGT                         --G-CCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG
genomic: CCAGCTGCTCCAGCTCCAGCTCCTGCTCCTATATTTTCAGGCTCTTCTGTgtaatatttt ... tttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcaattcccatttctttgttttaaatttcttgttaaaagaaactttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGGAAGTAACTTGGAGGGAACAATTCAGCAAATCCTTGACATGGGTGGAGGA
                                            ctttctt  CT-rich tract
           atttctttgttttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatattttgttttctgttatcattggaattcaccttttacttgttagattcctattttgaagatggaacattctttcaattcccatttctttgttttaaatttcttgttaaaagaaactttcttgaagCAGGCCAGAGTCTGATATATATGGGCAGGCAGCATCCAATCTTGTTGCTGGAAGTAACTTGGAGGGAACAATTCAGCAAATCCTTGACATGGGTGGAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA