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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccagtagacttcttgcctctaaacacttgtgttgttgggcatgaccattattcacactatatcatgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACGCGAATGTTCTACGAGATTGTTGTTGCACCCGGCTATACAGAAAAGGGTC

Basic information

species Oryza sativa
transcript LOC_Os08g10570.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10570.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 9
-----------------gtatccagtagacttcttgcctctaaac--acttgtgttg--ttgggcatgaccattattcacactatatcatgt---ttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACGCGAATGTTCTACGAGATTGTTGTTGCACCCGGCTATACAGAAAAGGGTC
                   | | ||   |  | || |    ||    | || | |||   | |    |||   |     |    | |  |||   || |||  |||||||||||||||||||| || ||||| || || |||||  | || || ||||| || |||||||| |||||||||   ||| || ||||||| |
tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctgagagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
















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|38479159|gb|CF963292.1|CF963292
EST:     CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAG                         GATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
genomic: CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAGgtatccagta ... catgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
EST: gi|29666407|gb|CB662682.1|CB662682
EST:     CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAG                         GATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
genomic: CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAGgtatccagta ... catgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
EST: gi|29666340|gb|CB662615.1|CB662615
EST:     CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAG                         GATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
genomic: CTGTTAGTGCATTTGGTGGGATAGTTGCTTTCAATACGACAATTGATGAGgtatccagta ... catgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
EST: gi|86493028|gb|CI135661.1|CI135661
EST:     TGGTGGGATAGTTGCTTTCAATACGACAATTGATGAG                         GATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG
genomic: TGGTGGGATAGTTGCTTTCAATACGACAATTGATGAGgtatccagta ... catgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaaacacttgtgttgttgggcatgaccattattcacactatatcatgtttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACGCGAATGTTCTACGAGATTGTTGTTGCACCCGGCTATACAGAAAAGGGTC
 ctctaaa  putative branch site (score: 3)
                             attattca  TA-rich tract