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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agttgtatttaaattaatttcctattgtgtcatggatgctctttgtaaattctaaagcctaaaaaatgacttacttttccattttcaaaccccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA

Basic information

species Zea mays
transcript GRMZM2G063851_T04
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 8
agttgtatttaaattaatttcctattgtgtcatggatgctctttgtaaattctaaagcctaaaaaatgactta-cttttccattttcaaaccccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
| ||  |   |||  | ||    | |   | ||  | ||  | | |   |           ||   | | ||| || ||| ||||| |  |    ||||||||||||||||| |||||||| ||||| ||||| ||| ||||||| |||||
aatta-accaaaaccatttaaaaaatcgttaataaaagccttgtatttctctgccttttgtaattcttatttagctcttctattttaactcttattttcagGTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAA
















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|51592469|gb|CV071615.1|CV071615
EST:     TAGATGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGAC
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGAC
EST: gi|211131287|gb|FL186946.1|FL186946
EST:     TAGATGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
EST: gi|21480820|gb|BQ577503.1|BQ577503
EST:     TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
EST: gi|211131286|gb|FL186945.1|FL186945
EST:     TAGATGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
EST: gi|32868179|gb|CF007861.1|CF007861
EST:     TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
EST: gi|78109451|gb|DV527867.1|DV527867
EST:     TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
EST: gi|67040702|gb|CO466957.1|CO466957
EST:     TAGATGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
genomic: TAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtgattacat ... cccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaattctaaagcctaaaaaatgacttacttttccattttcaaaccccatttcagGTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAA
                      gacttac  putative branch site (score: 2)
                                            ccccatttc  putative PPT
              taaaaaatgactta  TA-rich tract