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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactcttatctcttcttgcacatgaatgtatttgtgtgattatttagatagaaaaatcttgataaaactgtcatgcctggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACAGCTGAAGAGGCTTACGAATGGAGTGAG

Basic information

species Glycine max
transcript GLYMA16G08460.1
intron # 15
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|254320400|gb|GR826849.1|GR826849
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|13790083|gb|BG652674.1|BG652674
EST:     CTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: CTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|193594512|gb|FK548989.1|FK548989
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|19348065|gb|BM892597.1|BM892597
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCT
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCT
EST: gi|15203110|gb|BI425878.1|BI425878
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|6566798|gb|AW234430.1|AW234430
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|298199413|gb|HO042776.1|HO042776
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCACTCTCCAATCCAACTTCACAGTCTGAGCGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|17401843|gb|BM178625.1|BM178625
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|19453207|gb|BM954617.1|BM954617
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|298174577|gb|HO017800.1|HO017800
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|16346357|gb|BI971952.1|BI971952
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|7326720|gb|AW620518.1|AW620518
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
EST: gi|6964515|gb|AW433208.1|AW433208
EST:     GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA                         AAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA
genomic: GAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAAgtaaactctt ... tggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtgattatttagatagaaaaatcttgataaaactgtcatgcctggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACAGCTGAAGAGGCTTACGAATGGAGTGAG
                        tcttgat  putative branch site (score: 4)
      attatttagatagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaactcttatctcttcttgcacatgaatgtatttgtgtgattatttagatagaaaaatcttgataaaactgtcatgcctggcttgcagAAACCTCTTGTTTTGGCCCTCTCCAATCCAACTTCACAGTCTGAGTGTACAGCTGAAGAGGCTTACGAATGGAGTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG