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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtgaaaactctgagttctataagagttcaagggcaaaaaattacaagcgcttgttttgacatccctaattagtaaatcaccaagcttttggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAATCACTGCGCCAAACGAAG

Basic information

species Oryza sativa
transcript LOC_Os08g22864.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g22864.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G327394_T01 (Zea mays), 3'ss of exon 11
tagtgaaaactctgagttctataagagttcaagggcaaaaaattacaagcgcttgt---tttgacatcccta-attagtaaatcaccaagcttttggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAATCACTGCGCCAAACGAAG
|    |   || |  ||| |  |  |  |  |     |    ||       ||| |   ||| ||||| ||  |||| ||  | ||||| | ||    ||||||||||||||||||||||||||||||||| || |||||||| |||||||||| | | ||| |||| ||||
tgcctagtgcttt--gttttggagaaaatacatctttagcctttgtgtttccttctctttttaacatcactgtattacta--ttaccaaacattcttcctgcagGGATGGATCAGAAGGCCTTTCTTTTGCCTTCCGCATTACTGATGCAGCAACCCCAGCGTCAAATGAAG
















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|58671467|gb|CK060153.1|CK060153
EST:     GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAG                         GGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
genomic: GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAGgcaagtatcc ... tggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
EST: gi|58691060|gb|CK079747.1|CK079747
EST:     GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAG                         GGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
genomic: GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAGgcaagtatcc ... tggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
EST: gi|58677228|gb|CK065915.1|CK065915
EST:     GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAG                         GGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
genomic: GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAGgcaagtatcc ... tggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
EST: gi|33678899|gb|CF307138.1|CF307138
EST:     GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAG                         GGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
genomic: GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAGgcaagtatcc ... tggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
EST: gi|58610277|gb|CK038129.1|CK038129
EST:     GCTGTTCAGACAGCTAGGCTTGCGGATAAGGACCCAGTGAAGGAAAAGAG                         GGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT
genomic: GCTGTTCAGACAGCTAGGCTTGCAAATAAGGACCCAGTGAAGGAAAAGAGgcaagtatcc ... tggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagcgcttgttttgacatccctaattagtaaatcaccaagcttttggactgcagGGATGGATCAGAAGGCCTTTCTTTTGCTTTTCGCATTACGGATGCAGCAATCACTGCGCCAAACGAAG
                   ccctaat  putative branch site (score: 3)
                                         ctttt  putative PPT
                      taattagtaaatca  TA-rich tract