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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaattgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG

Basic information

species Glycine max
transcript GLYMA05G33320.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaat--tgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                                                                 |   | | ||| | | ||   ||||      |  ||| |||||   ||  |   | ||||   || || |  || || |     | ||| || |      |   ||||| ||| | ||||| || ||||||||||||||||||||||| |||||||||||  ||||||||||||| ||||||
---------------------------------------------------------------------------------tggaactatttactgagtatcaattgtagcttcttgacaattgacattcttctcatttctctagttttcatttttcgct-----tgtttattcatggtgcta--tagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG

upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
lower sequence: AC207890.3_FGT002 (Zea mays), 3'ss of exon 1
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaattgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                                                                       ||   |  |   | |    ||    |  |   | |||| |||   |  | ||    | | || |||   ||       | | | |  |   | | |||||| ||  | ||||| || || ||||| |||||||||||||| |||||||||||| ||||||| || || ||||||
--------------------------------------------------------------------------------------ttgcactttgaactatgtactcagtttcaattgtagcttcttgatattttactcatttctctagattttattttttgcttgtttattcatggtgttctagGCTCGCCGTGGTGGAGTTGACGAGCCCTTTGCATGGGAAAGCAGAGAGTTTCTAAGGAAGCTTTGTATAGGGAAG

upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G61780.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatt-tcgaaattgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                                                     ||   ||||  |||| || |  |||| | |   || | |    | | | ||  | |||     | | |||   | |  |||   |   ||     | |||| ||      | |   |||| || ||||| ||| |||||||||| |||||||||||||| || ||||||||| ||||||| |||||||| |||
--------------------------------------------------------------------gtcagctttg--ttaaaaaagcattccttttcacaactctttttactaacaaaagtttt-----caatttcatagctacttattatgt-ttctcattgtttggtttgcctttgtttcagGCTCGCAGAGGAGGTATAGATGAGCCTTTTGCATGGGAAAGCAGGGAGTTTCTAAGGAAGCTTTGCATTGGAAAG

upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 2
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaattgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                                                       ||||||||  ||| ||  ||||   |  |  |  |  || | | ||   |  |  ||   ||  |    ||| || |   ||         ||| |   | |      || |||||| ||||| ||||| || |||||||||||||||||||| || ||||||| | || |||||||||||||||| |||
----------------------------------------------------------------------ggattttgt--taagaacattttgttttgttcagctgtgataataaatggtattgattagacttatgactgggagtctcttttt--------ctcctctctca------ttcctagGCCCGTAGGGGTGGAGTTGATGAGCCGTTTGCATGGGACAGCAGAGAGTATTTAAGGAAGCTCTGCATTGGAAAG

upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 1
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaattgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaa---atttgcta--gGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                                                                         |||  | | | |||||  |  | ||   || ||  || | |  || | |       | | |  |||  | |     ||| ||| || |   |||  |||  ||| |||||||||||| | ||||| || ||||||||||| |||||||||| | |  |||| |||||||| || |||
-----------------------------------------------------------------------------------------tttggcat-tactaataccacactttttaaatgaattctcta-tattccatactcttattctgtaccctgacctgatttttttgaatatctattgactatagGCCCGTAGAGGTGGTATTGATGAACCATTTGCATGGGATAGTAGAGAGTATTTGAGGAAACTCTGCATAGGAAAG

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|213598156|gb|DB964159.1|DB964159
EST:     CTTTGCCTGAAAAGTCCATCACGTTATCATCTCTAATGGCTCCTAGACTG                         GCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTT
genomic: CTTTGCCTGAAAAGTCCATCACGTTATCATCTCTAATGGCTCCTAGACTGgtaattttac ... aatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTT
EST: gi|209711431|gb|BW665183.1|BW665183
EST:     CTTTGCCTGAAAAGTCCATCACGTTATCATCTCTAATGGCTCCTAGACTG                         GCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTT
genomic: CTTTGCCTGAAAAGTCCATCACGTTATCATCTCTAATGGCTCCTAGACTGgtaattttac ... aatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG
                                tctttgtttaaaaaat  TA-rich tract