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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcacatctaacaagttgcccaatttgtcagttttatcgtgttttttgttagtgagcgtcctaagttctatgtaatccaactagggatcatattgccagcaactaacaatgtgtatgcctttatatccacctgctttctagGTATCTTGCACATGGCACCACAACTGATTACATGTACGACATTGTAAAGGTGCCTATGCCCTTTACCTTTGAG

Basic information

species Oryza sativa
transcript LOC_Os02g02710.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g02710.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G006069_T02 (Zea mays), 3'ss of exon 7
gtatgcacatctaacaagttgcc-------caatttgtcagttttatcgtgttttttgttagtgagcgtcctaagttctatgtaatccaactagggatcatattgccagcaactaacaatgtgtatgcctttatatc-----cacctgctttct-agGTATCTTGCACATGGCACCACAACTGATTACATGTACGACATTGTAAAGGTGCCTATGCCCTTTACCTTTGAG
||| |  |||||| || |||  |       ||   | | | ||||||    | | ||||| ||   |  |  ||||||| || | |   ||    ||    ||    |    | | ||| |    ||  || ||||      | | | |||| | || |||||||||||||| || ||||||||||||||||| ||||||| ||||||||| ||||| || |||||||||
gtaagtccatctagcacgttctcgtcttctcatactattacttttattcc-tgtgttgtttgtctccccctgaagttctgtg-attttgacagtagaattaatgataactgtccagcaaagcaagtgtgttcatattttttacccttcctttatcagATATCTTGCACATGGTACAACAACTGATTACATGTATGACATTGCAAAGGTGCCAATGCCGTTCACCTTTGAG
















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|29644785|gb|CB649792.1|CB649792
EST:     CGCCATTTCCAAGATAGCTGCCTTGTTGGATCAGGTGGTGGAGCTGTGGG                         GTATCTTGCACATGGCACCACAACTGATTACATGTACGACATTGTAAAGGT
genomic: CGCCATTTCCAAGATAGCTGCCTTGTTGGATCAGGTGGTGGAGCTGTGGGgtatgcacat ... tgctttctagGTATCTTGCACATGGCACCACAACTGATTACATGTACGACATTGTAAAGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatattgccagcaactaacaatgtgtatgcctttatatccacctgctttctagGTATCTTGCACATGGCACCACAACTGATTACATGTACGACATTGTAAAGGTGCCTATGCCCTTTACCTTTGAG
              aactaac  putative branch site (score: 1)
                                       tccacctgctttct  putative PPT
                                 tttatat  TA-rich tract