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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctgtcttttacttttgtattagttactatctagttttgatactaattttttgttttttaattgtaatgaacaactgtttcttgattggaaatgaaagttttcttcttccattgctagggatccagacatacagtttgttattgatctatttttggggggttttactttaagaacttctctttcattgcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAATTGGTCAGGCTTTAAAGTGGCAGCAGCATCAAG

Basic information

species Glycine max
transcript GLYMA08G13560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13560.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttctgtcttttacttttgtattagttactatctagttttgatactaattttttgttttttaattgtaatgaacaactgtttcttgattggaaatgaaagttttcttcttccattgctagggatccagacatacagtttgttattgatctatttttggggggttttactttaagaacttctctttcattgcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAATTGGTCAGGCTTTAAAGTGGCAGCAGCATCAAG
                                                                                              | || |  ||  ||| |   |    | || |  |||  |   ||||  | ||| ||  | | |        || |  |||    || |  | |  | |    |||||| | || || || ||||| || || ||||| || || || |||||||| || |||||||||||||||||||| || |||||||
----------------------------------------------------------------------------------------------acgagaacttatttcctgttta---atggttatagagtttttgttttctcttgctcagtatgtactcaaggtt-cactaattgtttgttctcc--tactcgatcagCTGTGGCTGCCGAGGTTACCGTGGTACCACCTTCACGGTTAATGGCTTTGATAGGTCAGGCTTTAAAGTGGCAACAACATCAAG

upper sequence: GLYMA08G13560.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 4
gtttctgtcttttacttttgtattagttactatctagttttgatactaattttttgttttttaattgtaatgaacaactgtttcttgattggaaatgaaagttttcttcttccattgctagggatccagacatacagtttgttattgatctatttttggggggttttactttaagaacttctctttcattgcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAATTGGTCAGGCTTTAAAGTGGCAGCAGCATCAAG
                                                                                     | ||  | | | | | || | | ||   ||| ||     |  | |  |  ||||  |  || || | ||||        ||| ||||| ||  ||  || || ||   || ||||| || || || |||||| ||||||| || ||||| ||||| |||||| | |||||||||||| | ||||||||||| |||||||
-------------------------------------------------------------------------------------taat--gcatttataattgtatactgtgatttct-----ttaatatttgtagtt-atacttcatgtctttta-------ttttctttatgatttttcctctctttcatttgtcagCCCTCGCTGCTGAAGTTTCTGTAGTTCCTCCATCACGATTAATGGCTCTCATTGGTCAGGCTCTGAAGTGGCAGCAACATCAAG
















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|208036629|gb|GD834418.1|GD834418
EST:     GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAG                         CTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
genomic: GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAGgtttctgtct ... gcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
EST: gi|151399243|gb|EV269114.1|EV269114
EST:     GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAG                         CTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
genomic: GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAGgtttctgtct ... gcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
EST: gi|209709054|gb|BW658770.1|BW658770
EST:     GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAG                         CTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
genomic: GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAGgtttctgtct ... gcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAA
EST: gi|207757097|gb|GD730055.1|GD730055
EST:     GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAG                         CTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTTA
genomic: GCTTATCAAGACTCAACAAAAGAGAAGCGACGTGCACAAATAGCCCAAGgtttctgtct ... gcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTT-A


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatctatttttggggggttttactttaagaacttctctttcattgcattttcagCTCTTGCAGCAGAAGTTACTGTAGTGCCACCATCCCGATTGATGGCTTTAATTGGTCAGGCTTTAAAGTGGCAGCAGCATCAAG
 tattgat  putative branch site (score: 3)
                                cttctctttcattgca  putative PPT
                  ttttactttaagaa  TA-rich tract