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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgcaccacaaaccttaattttgctacctccaccggccatctctcgtgccgtactccggctgactccgacaatatgtgcggtgttgatcagCGCGCCGGCAGGGAGGACAGGGGAAGGACCATGATCCTGCAGAACAACGGGTACGACGCGTCGGGCTCGTTCATGGTCTACTCCCAGATCGACAGCGAGC

Basic information

species Oryza sativa
transcript LOC_Os01g57890.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g57890.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G386276_T01 (Zea mays), 3'ss of exon 9
--------gtaccgcaccacaaaccttaattttgctacctccac-cggccatctctcgtgccgtactccggc--tgactccgacaatatgtgcg-gtgttgatcagCGCGCCGGCAGGGAGGACAGGGGAAGGACCATGATCCTGCAGAACAACGGGTACGACGCGTCGGGCTCGTTCATGGTCTACTCCCAGATCGACAGCGAGC
        | ||  || |||    |  | ||||  |   |  |    |  |   | | |||  |  ||   |   ||   |       |||  |    | |||||||  | |  | |||   ||||||  |  |  |||||||||||||||| | | ||||||||||| || ||||||||||||||||||    ||||||   |||
gtaccagagaacatcagcactcgacgcacttttcgtttatgaatattgtgactgcgcctgcgattttcacacatcgatctcacttgagtgtttgcaaatcgatcagCATGGCCACGGGGCAAACAGGGACACCATGATGATCCTGCAGAACAGCAGCTACGACGCGTCCGGGTCGTTCATGGTCTACTCCTCTCTCGACAAGCAGC
















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|86897329|gb|CI294361.1|CI294361
EST:     TCGCCAGAGGCGTCGGGAACGACGACACTGTCACCGTCCTCCACTGCAAG                         CGCGCCGGCAGGGAGGACAGGGGAAGGACCATGATCCTGGAGAACAACGGG
genomic: TCGCCAGAGGCGTCGGGAACGACGACACTGTCACCGTCCTCCACTGCAAGgtaccgcacc ... tgttgatcagCGCGCCGGCAGGGAGGACAGGGGAAGGACCATGATCCTGCAGAACAACGGG
EST: gi|88337180|gb|CI628266.1|CI628266
EST:     TCGCCAGAGGCGTCGGGAACGACGACACTGTCACCGTCCTCCACTGCAAG                         CGCGCCGGCAGGGAGGACAGG
genomic: TCGCCAGAGGCGTCGGGAACGACGACACTGTCACCGTCCTCCACTGCAAGgtaccgcacc ... tgttgatcagCGCGCCGGCAGGGAGGACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatctctcgtgccgtactccggctgactccgacaatatgtgcggtgttgatcagCGCGCCGGCAGGGAGGACAGGGGAAGGACCATGATCCTGCAGAACAACGGGTACGACGCGTCGGGCTCGTTCATGGTCTACTCCCAGATCGACAGCGAGC
                     ggctgac  putative branch site (score: 3)
                                acaatat  TA-rich tract