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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatttacttgagaaattaaagaacatatttttggtaaaactatttaatttagaaatggtattgagtatttacttaatttggtatctttaatatgtttactaggataattataatacatgcatctatggtttgcatagatgaatattggagttaaatctattgatgctttatcacatttctctcaaatatgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG

Basic information

species Glycine max
transcript GLYMA15G40060.1
intron # 6
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|254314632|gb|GR829625.1|GR829625
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|7588858|gb|AW704644.1|AW704644
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|58020690|gb|CX707432.1|CX707432
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|19053081|gb|BM731748.1|BM731748
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|151403013|gb|EV272826.1|EV272826
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|14989895|gb|BI315576.1|BI315576
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|58020886|gb|CX707628.1|CX707628
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|19270477|gb|BM886733.1|BM886733
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|58020497|gb|CX707239.1|CX707239
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|298191171|gb|HO038650.1|HO038650
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAACATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
EST: gi|8284333|gb|BE021892.1|BE021892
EST:     AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAG                         GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG
genomic: AGCGTGAAATGTGTGCCCGGACTGTCTATTGTACAAATATTGATAAAAAGgtatatttac ... atgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattggagttaaatctattgatgctttatcacatttctctcaaatatgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG
               tattgat  putative branch site (score: 3)
        ttaaatctattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatttacttgagaaattaaagaacatatttttggtaaaactatttaatttagaaatggtattgagtatttacttaatttggtatctttaatatgtttactaggataattataatacatgcatctatggtttgcatagatgaatattggagttaaatctattgatgctttatcacatttctctcaaatatgagtgcagGTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT