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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatctttctttaaaatattttgttcttcatccgctccttccttttcatgttaagctctttctttgttatagctgataattttcatgtacag

Basic information

species Glycine max
transcript GLYMA04G01240.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G072608_T01 (Zea mays), 5'ss of exon 1
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgta---catctttctttaaaatattttgttcttcatccgctccttc----cttttcatgttaagctct-ttctttgttatagctgataattttcatgtacag
| |||||||| |||  |||||| || |||||| ||||  |  |||| || |   | |||||||||||||| |||||||||||||| || ||| || | ||||     ||     |||  || |   | || | |||    ||  |     | | ||||||   ||  |  | ||     |    ||  |||||  ||||   
TCTGTGGAAGTATGGAGTCTGCCTTAGAACTGCTAGCATCAACTCCATATTGCTTATCAATTGAGAAAGTGTTTGTTATAGGAGGCGGACAGGTACTGAGgtgagttattaccttttggaacaacatattgtacatgtattctgttgctgcatgtcatgtgttgcaatgctattcacccttctggaatatttttctgtag--

upper sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G005990_T01 (Zea mays), 5'ss of exon 2
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgta---catctttctttaaaatattttgttcttcatccgctccttc----cttttcatgttaagctct-ttctttgttatagctgataattttcatgtacag
| |||||||| |||  |||||| || |||||| ||||  |  |||| || |   | |||||||||||||| |||||||||||||| || ||| || | ||||     ||     |||  || |   | || | |||    ||  |     | | ||||||   ||  |  | ||     |    ||  |||||  ||||   
TCTGTGGAAGTATGGAGTCTGCCTTAGAACTGCTAGCATCAACTCCATATTGCTTATCAATTGAGAAAGTGTTTGTTATAGGAGGCGGGCAGGTACTGAGgtgagttattaccttttggaacaacatattgtacatgtattctgttgctgcatgtcatgtgttgcaatgctattcacccttctggaatatttttgtgtag--

upper sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G421493_T01 (Zea mays), 5'ss of exon 5
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgta---catctttctttaaaatattttgttcttcatccgctccttc----cttttcatgttaagctct-ttctttgttatagctgataattttcatgtacag
| |||| ||| |||  |||||| ||  ||||| ||||  |  |||| || |   | |||||||||||||| |||||||||||||| || ||| || | ||||     ||     |||  || |   | || | |||    ||  |     | | ||||||   ||  |  | ||     |    ||  |||||  ||||   
TCTGTGCAAGTATGGAGTCTGCCTTAAAACTGCTAGCATCAACTCCATATTGCTTATCAATTGAGAAAGTGTTTGTTATAGGAGGCGGGCAGGTACTGAGgtgagttattaccttttggaacaacatattgtacatgtattctgttgctgcatgtcatgtgttgcaatgctattcacccttctggaatatttttgtgtag--

upper sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 3
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatctttctttaaaatattttgttcttcatccgctccttccttttcatgttaagctctttctttgttatagctgataattttcatgtacag
|||||||||||||| | ||||| |||||||| |||||||| ||||| || | |||||| ||||| ||||| ||||||||||||||||| |||||| | ||||   |  ||  || |   |||    | || |   |||  ||| || |     |    | | | ||   || ||                    
TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgat-cattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacag--------------------

upper sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 5'ss of exon 1
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatctttctttaaaatattttgttcttcatccgctccttccttttcatgttaagctctttctttgttatagctgataattttcatgtacag
|||||||||||||| |||| || ||| || |  | || |  |||||||| | | ||||||| || || || ||||||||||| |||||||||||||| ||||   |  ||        ||||    | |  ||    |     || ||  ||||||    ||    || ||| | ||||     | || |||||
TATGTGGAAGCATGCCGTCAGCTTTGAAATTACTGGCAGAATCTCCTTATTGTTTGTCAATAGACAAGGTGTTTGTTATAGGGGGTGGTCAGATATTAAGgtgagtaatt--------tattgctctttgaatgaagtggaaactgttt-tgttaa----ttataatgatattggtgat----cttatatacag

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|193433108|gb|FK395760.1|FK395760
EST:     TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAG                         AGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
genomic: TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatcttt ... tcatgtacagAGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
EST: gi|193426489|gb|FK386618.1|FK386618
EST:     TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAG                         AGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
genomic: TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatcttt ... tcatgtacagAGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
EST: gi|193322903|gb|FK288761.1|FK288761
EST:     TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAG                         AGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
genomic: TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatcttt ... tcatgtacagAGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
EST: gi|193430827|gb|FK396461.1|FK396461
EST:     TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAG                         AGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA
genomic: TCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatcttt ... tcatgtacagAGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCA