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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacaatgaaataattatacagagataatttattttatatctaaattatttctttcctgtttgtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTCAG

Basic information

species Oryza sativa
transcript LOC_Os10g11140.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g11140.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 9
gtatacaatgaaataattatacagagataatttattttatatctaaattatttctttcctgtttgtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTCAG
|||| || ||||   ||||   ||  |||   | |||| | | | | | ||   ||   |||||  |  | |||||||||||||||||||||||||||||||  ||| | |||||||| ||||||||
gtatgcagtgaat--attacggagcaataccctgtttt-tgtttcactaataatttgtttgttttggcttgcagAATGTGTTTGACTTCCAACTTATCAAGGATTTGCTTTCTCGGCCTGATTTCAG
















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|58691145|gb|CK079832.1|CK079832
EST:     TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAG                         AATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
genomic: TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAGgtatacaatg ... gtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
EST: gi|58676489|gb|CK065176.1|CK065176
EST:     TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAG                         AATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
genomic: TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAGgtatacaatg ... gtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
EST: gi|58608460|gb|CK036493.1|CK036493
EST:     TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAG                         AATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
genomic: TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAGgtatacaatg ... gtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
EST: gi|29681950|gb|CB678225.1|CB678225
EST:     TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAG                         AATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC
genomic: TCACCGTTGAAGTGATAGACCCTGTCTTGGACTACCTTGAGCTAATGGAGgtatacaatg ... gtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacagagataatttattttatatctaaattatttctttcctgtttgtgtcttcagAATGTGTTTGACTTCCAACTTATCAAGGGCTTGTTGTCTCGGCCAGATTTCAG
                     atctaaa  putative branch site (score: 3)
                               tttctttcctgtttgt  putative PPT
       ataatttattttatat  TA-rich tract