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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcttcctacctctctgcttctctcactcaccatccgatttgaatttgctgtttctcgaatttgattcgttcgattttattaccttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA

Basic information

species Glycine max
transcript GLYMA17G07390.1
intron # 1
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|298164029|gb|HO013674.1|HO013674
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|298181091|gb|HO022530.1|HO022530
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|15813660|gb|BI785935.1|BI785935
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|12689317|gb|BG155653.1|BG155653
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|298186094|gb|HO036727.1|HO036727
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ACCGCCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|120532471|gb|EH260604.1|EH260604
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|193708401|gb|FK645423.1|FK645423
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|298194453|gb|HO041101.1|HO041101
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatttgctgtttctcgaatttgattcgttcgattttattaccttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
                   atttgat  putative branch site (score: 5)
                                  ttttattaccttcctt  putative PPT
                                 attttatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcttcctacctctctgcttctctcactcaccatccgatttgaatttgctgtttctcgaatttgattcgttcgattttattaccttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG