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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtacttgatccttaccatattcatgttaaatagaagcagttggtaatagtgggtgttctctaaggaactaggtgcgcactgtctatatagctgaactgtaatgtccaatctcaattcaaacaatatcagttaagtgtatttggcatattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAA

Basic information

species Oryza sativa
transcript LOC_Os03g24220.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g24220.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G323479_T01 (Zea mays), 3'ss of exon 18
gtatggtacttgatccttaccatattcatgttaaatagaagcagttggtaatag-tgggtgtt---ctctaaggaacta-----ggtgcgcactg---tctatatagctgaactgtaatgtccaatctcaattcaaacaatatcagttaagtgtatttggcatattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAA
          |||| ||  |  |  | |||| |  || |   ||||  | |||  || ||| |   ||  || |||||      || ||   |||   |||||  |  ||||   |  | |  ||  | | | || | | || |||   | ||||||||  | ||  |||||||||| | ||||||||| ||  |||||| ||||||||| |||||  |||| ||||||||||||| |   |||||| | |||||  ||| |||||||||||
-------gtatgatgctcgctgtgattatgtcatgtatagtgagttaatgataaatgtgtgctggtctgcaaagaactcatattggagcattctgcattctatggaaatgaaaaatgttttgtaacgttactccagaaattaccag---aatgtatttgataaatcatgcagGGTGGTACCAGCTCTGGTTATAAGAAATATGTAGAAGAGAAGGGTCTGAAAGATGAAACATATTGTTCTGATGGCGTCGCTCTCATTCAAATTTCTGGAA

upper sequence: LOC_Os03g24220.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 13
gtatggtacttgatccttaccatattcatgttaaatagaagcagttggtaatag-tgggtgtt---ctctaaggaactaggtgcgcactgtctatatagctgaactgtaatgtccaatctcaattcaaacaatatcagttaagtgtatttggcatattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAA
||||||| ||  |   | |  || | ||||| | |  ||   ||||  | |||  || ||| |   ||  || |||||   || |  |  |||||| |  ||||   |  | |  ||  | | | |   | | || |    | ||||||||  | ||  |||||||||| |  |||||||| ||  |||||||||||||||| |||||  |||| |||||||| |||| |   ||||||| ||||||  ||| |||||||||||
gtatggtgctc-actgtgattatgt-catgt-atagggagttagttaatgataaatgtgtgctggtctgcaaagaactcattg-gagcattctatagaaatgaaaaatgttttgtaacgttactcc---cgaaattacggcaatgtatttgtaaaatcatgcagGGTGGTACTAGCTCTGGTTATAAGAAATTTGTAGAAGAGAAGGGTCTGAAAGATGAAACGTATTGTTCTGATGGCACTGCTCTCATTCAAATTTCTGGAA
















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|58670584|gb|CK059270.1|CK059270
EST:     AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAG                         GGTGGAATCAGCTCTGGATACCAGAAATGTGTAGAAGAAAAGGGCTTGAAG
genomic: AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAGgtatggtact ... tattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
EST: gi|88692350|gb|CI735925.1|CI735925
EST:     AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAG                         GGTGGAATCAGNTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
genomic: AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAGgtatggtact ... tattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
EST: gi|12404685|gb|AU166286.1|AU166286
EST:     GGTCATTCTAAAG                         GGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
genomic: GGTCATTCTAAAGgtatggtact ... tattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
EST: gi|426363|gb|D22226.1|D22226
EST:     GGTCATTCTAAAG                         GGNGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
genomic: GGTCATTCTAAAGgtatggtact ... tattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
EST: gi|88569524|gb|CI660699.1|CI660699
EST:     AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAG                         GGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG
genomic: AAGAACCACCACAATTTATTGCCCTTTTCCAGCCCATGGTCATTCTAAAGgtatggtact ... tattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtccaatctcaattcaaacaatatcagttaagtgtatttggcatattgtgcagGGTGGAATCAGCTCTGGATACCAGAAATTTGTAGAAGAAAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAA
            aattcaaacaatat  TA-rich tract