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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatatatctactatgtgtgtacatatatctctctggcatggatcccactaatcccacactagcttttacagtagttgcttaaattgtttgtactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG

Basic information

species Glycine max
transcript GLYMA08G42300.1
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|193424007|gb|FK386328.1|FK386328
EST:     GTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAAGGGACCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCA
genomic: GTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTT-AGGG-CCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCA
EST: gi|208125774|gb|GD921574.1|GD921574
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAAT
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAAT
EST: gi|6665849|gb|AW277299.1|AW277299
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298164275|gb|HO013920.1|HO013920
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCGAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193646978|gb|FK588873.1|FK588873
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193359674|gb|FK323758.1|FK323758
EST:     GTCTTCTCAACCCGTGGTTCCGTTTTGTTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: GTCTTCTCAACCCGTGG--CCG-TTTG-TATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193693597|gb|FK634229.1|FK634229
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193362757|gb|FK324405.1|FK324405
EST:     GTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: GTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298181403|gb|HO022842.1|HO022842
EST:     CTTGTTGTCTTCTCGACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|6666384|gb|AW277843.1|AW277843
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|9985912|gb|BE659918.1|BE659918
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193632718|gb|FK580566.1|FK580566
EST:     ATGAGTATGCCAACAACAG                         TGTTAGGGCCACCATTGAAAGGTACGAGAAGGCAAATGCTGCTGCTTCAAA
genomic: ATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298186356|gb|HO036989.1|HO036989
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACCATTGAAAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298187885|gb|HO031842.1|HO031842
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298198572|gb|HO040111.1|HO040111
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|207782861|gb|GD754502.1|GD754502
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|207824891|gb|GD794699.1|GD794699
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|298181551|gb|HO025726.1|HO025726
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACCATTGAAAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|193437618|gb|FK399131.1|FK399131
EST:     GTCTTCTCAACCCGTGGCCGTTTGTATGAGTATTGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: GTCTTCTCAACCCGTGGCCGTTTGTATGAGTA-TGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|6454914|gb|AW185524.1|AW185524
EST:     CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CTTGTTGTCTTCTCAACCCGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
EST: gi|208212735|gb|GE013208.1|GE013208
EST:     CGTGGCCGTTTGTATGAGTATGCCAACAACAG                         TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA
genomic: CGTGGCCGTTTGTATGAGTATGCCAACAACAGgtttctttaa ... tactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactaatcccacactagcttttacagtagttgcttaaattgtttgtactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG
 cactaat  putative branch site (score: 2)
                                 ttaaattgtttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatatatctactatgtgtgtacatatatctctctggcatggatcccactaatcccacactagcttttacagtagttgcttaaattgtttgtactttgcagTGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC