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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgctgcatagtgcgttgcatcaaaaaactttatattataataatatttaatttttgagagtacgtgtttacttaattattcttttgattttgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAGATTGGCAGATCATAATCGCCGCAGAAGAAAAACACAGCAACCAACTCAA

Basic information

species Glycine max
transcript GLYMA03G27180.1
intron # 2
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|193390480|gb|FK356428.1|FK356428
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|208245342|gb|GE041666.1|GE041666
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193541036|gb|FK497808.1|FK497808
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193707561|gb|FK646783.1|FK646783
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAA-CGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193632901|gb|FK581071.1|FK581071
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|207799002|gb|GD770997.1|GD770997
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCA
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCA
EST: gi|193445828|gb|FK414949.1|FK414949
EST:     ACCGTCATCGGCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|7147172|gb|AW509094.1|AW509094
EST:     CTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: CTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193622781|gb|FK571513.1|FK571513
EST:     GCCGGGTTGACTCAGCGTATTTCTTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: GCCGGGTTGACTCAGCG-A-TTC-TGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193435228|gb|FK404110.1|FK404110
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTAGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGA
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCT-GAGTTTGATAACGGAAAACGTAGCTGCAGGAAGA
EST: gi|193559677|gb|FK515008.1|FK515008
EST:     GCCGGGTGGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: GCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|8284876|gb|BE022435.1|BE022435
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193682540|gb|FK621678.1|FK621678
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|208249392|gb|GE046807.1|GE046807
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|208275228|gb|GE068048.1|GE068048
EST:     CCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: CCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193356910|gb|FK322276.1|FK322276
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTTCTGAGTTTTGATAACGGAAAACGTAGCTGCAGGAAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTT-CTGAGTTT-GATAACGGAAAACGTAGCTGCAGGAAG
EST: gi|8285524|gb|BE023083.1|BE023083
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|208282388|gb|GE075110.1|GE075110
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193708406|gb|FK645428.1|FK645428
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193404039|gb|FK367731.1|FK367731
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|10236075|gb|BE805023.1|BE805023
EST:     CCGTTATTCCCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: CCGTCA-TCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193465461|gb|FK432436.1|FK432436
EST:     CGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGACAACGGAAAACGTAGCTGCAGGAAGAG
genomic: CGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
EST: gi|193672063|gb|FK614653.1|FK614653
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCTGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAG
EST: gi|193382542|gb|FK345795.1|FK345795
EST:     ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAG                         GTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG
genomic: ACCGTCATCGCCGCCGGGTTGACTCAGCGATTCTGCCAGCAATGCAGCAGgttgtggtgg ... tgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatttttgagagtacgtgtttacttaattattcttttgattttgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAGATTGGCAGATCATAATCGCCGCAGAAGAAAAACACAGCAACCAACTCAA
                                          ttttgac  putative branch site (score: 3)
                   tgtttacttaattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgctgcatagtgcgttgcatcaaaaaactttatattataataatatttaatttttgagagtacgtgtttacttaattattcttttgattttgacgtgcagGTTCCATCTTCTTTCTGAGTTTGATAACGGAAAACGTAGCTGCAGGAAGAGATTGGCAGATCATAATCGCCGCAGAAGAAAAACACAGCAACCAACTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA