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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcaccacctcattgtgtgctaccagaaacctcaaattatatccttatattctgcttcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATTGACATAATACCTCCAGAAAAAATAAGCCCCACTGTGCAACCTGCAAAAA

Basic information

species Oryza sativa
transcript LOC_Os04g37660.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g37660.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G044382_T01 (Zea mays), 3'ss of exon 6
-----------gttagttcaccacc--tcattgtgtgctaccagaaacctcaaattata---------tccttatattctgcttcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATTGACATAATACCTCCAGAAAAAATAAGCCCCACTGTGCAACCTGCAAAAA
            |    |  |||||  || |          |  ||| |   | || ||         | | ||  |  ||  |  |||| |||||||| ||| | |||||||||||||||||||||| ||||| |||||||||||||||||| | ||||| |||  ||  | |||| | ||| ||  || ||
gtacaatactaatacccttcccacccatcctaacacaaggtctcaaatcctcagttgtacatgtactgttcctaactggtgtattgtttgcagGAAGCAGTTGAAGCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATTGACATAATATCACCAGAGAAACCAAAACGCACTATACAATCTCAAAGAA

upper sequence: LOC_Os04g37660.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G015610_T02 (Zea mays), 3'ss of exon 6
-----------gttagttcaccacctcattgtgtgcta---ccagaaacctcaaattata---tccttatattctgcttcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATTGACATAATACCTCCAGAAAAAATAAGCCCCACTGTGCAACCTGCAAAAA
           ||    |  ||| | |||  |     |    |  ||| |   | || ||   | | ||  |  ||     |||| |||||||| ||| |||||||||||||||||||||||| ||||| |||||||||||||||||||| ||||| |||  ||    |||| |  || || ||||||
gtacaacactagtacccttcccagcccatcttaacacaaggtctaaaatcctcagttgtactgttcctaactggtgtactgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATTGACATAATACCACCAGAGAAACAAAAATGCACTATAGAATCTCCAAAAA
















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|29636845|gb|CB641854.1|CB641854
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|29619327|gb|CB624339.1|CB624339
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|88372968|gb|CI640419.1|CI640419
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|88333501|gb|CI656573.1|CI656573
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATCGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|88296263|gb|CI667653.1|CI667653
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|2310423|gb|C26578.1|C26578
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
EST: gi|58605846|gb|CK033879.1|CK033879
EST:     GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAA                         GAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT
genomic: GTTGTGCACGAGGGCTTCCTCCAGAAGCTGCAGCGGATCAAATTGTCAAAgttagttcac ... tcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtgtgctaccagaaacctcaaattatatccttatattctgcttcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATTGACATAATACCTCCAGAAAAAATAAGCCCCACTGTGCAACCTGCAAAAA
                              tccttatattctgctt  CT-rich tract
                      aaattatatccttata  TA-rich tract