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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatgaacaatcaccaaggtgacaactattccttttaagctttctctgctgtcaagtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC

Basic information

species Glycine max
transcript GLYMA06G42840.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G42840.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaggatgaacaatcaccaaggtgacaactattccttttaagctttctctgctgtcaagtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC
                           |  |  | ||| |  |   |  | | |       ||    |   ||    |     ||| |  | |    |||||    |   ||||| || |||||||| ||||||||  |||| || ||||||||||||||||||||  | || || ||||| ||||| |||||  |||||||   ||||||||
-------------------------gtattttgtgcttctctgtactagcggttccaggacataaattctcttctttctttctgatcaagtctgaaatttac---gattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC

upper sequence: GLYMA06G42840.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 3
gtaaggatgaacaatcaccaaggtgacaactattccttttaagctttctctgctgtcaagtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC
                || |   |  ||    || ||   ||   |||  |  | |||    |||| || |       || || | |     |||||| || ||       ||||||| |||||||| ||||||||  | || || || ||||||||||| |||||||||||||| |||||||||||  |||||||| ||||||| |||||||
--------------gtactagtataccagt--tttctagcaaa--ttcagtattctcacccgtctctttat-------cattgaagg----ctctcttgtaacttttttccagGCAAAATGCTTGGAAACTGGAGAAACTGTCGCAATAAAAAAGGTCTTACAAGACAGGCGGTATAAAAATCGTGAGCTGCAGTTATTGCGCTTGATGGATC

upper sequence: GLYMA06G42840.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 4
gtaaggatgaacaatcaccaaggtgacaactattccttttaagctttctctgctgtcaagtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC
                                            | |  ||  |  |||  |   ||       |   |  |    |    |||| | |       ||   |||| ||||||||||| || |||||  | |||||||| ||||||||| | ||||||| ||||||||| || || ||  | ||| |||||||| |  | || |
-------------------------------------------gtattgctagt-ccaaacagtgcaacaaaagcaggctttat-cgtttcttctttctctttgggaatgcagGCCAAGTGCTTGGAAACCGGAGAAACCGTGGCTATCAAAAAGGTCCTCCAAGACAAGCGGTACAAGAACCGAGAGCTCCAGATAATGCGCCTCCTCGACC

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|207693998|gb|GD675073.1|GD675073
EST:     ATGGCAGAACGTGTTGTCGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|120530050|gb|EH258184.1|EH258184
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|37996099|gb|CF807688.1|CF807688
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|193416669|gb|FK384125.1|FK384125
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|120531619|gb|EH259752.1|EH259752
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|5058337|gb|AI736813.1|AI736813
EST:     ACATGGCACAACGTGATGATGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|208268482|gb|GE069393.1|GE069393
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTT
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTT
EST: gi|193433005|gb|FK395713.1|FK395713
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
EST: gi|42723166|gb|CK769065.1|CK769065
EST:     ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAG                         GCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA
genomic: ACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaaggatga ... taaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC
                                          acctaaa  putative branch site (score: 3)
                              catttctcttttacct  CT-rich tract
                                             taaaacata  TA-rich tract