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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacttcattcttgatgtgcactgaatgtttattgtgctctttggtgttgctcaaattcagtggttgtgagcaggaaatgaaatttaaacacgtatataccctctattatatatttatagGTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTCTTCTCTTGAAAGCTTGAACCTTTATGCCCTGTCAAG

Basic information

species Oryza sativa
transcript LOC_Os02g17990.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17990.4 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G055705_T01 (Zea mays), 3'ss of exon 6
---------------------------------gtacacttcattcttgatgtgca-ctgaatgtttattgtgctctttggtgttgctcaaattcagtggttgtg-agcaggaaatgaaatttaaacacgtatataccctctattatatatttatagGTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTCTTCTCTTGAAAGCTTGAACCTTTATGCCCTGTCAAG
                                   |||    |||||| |  || | || | || |||     || |||  | |  |  |  ||  ||| |||   ||||| |  ||| |  ||||           ||| |  || || | |  |||||  | ||||||||||| ||||| ||| |  |||| |||| ||| |||||||| ||||||||| | |||||||||||||| |||||
gtatggttaggtttctggaatatatccatcacaaaacaagcaattcttaacatgtatcttattgcttacccatctttttcttctcaca-atttttggtgtttggatagcagaatgtgatacctaaatgt-------tcctgtgctaaat-tgtccagGTGTGTTAAGTTGACAGATGATGGGCTTAACCAAGTTCTTCTGAAGTGTTCTTCACTTGAAAGCCTAAACCTTTATGCCCTTTCAAG
















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|29668215|gb|CB664490.1|CB664490
EST:     CAGCTAGTTGCTGATAATTATGAAGGACTAAAGAAGTTGAACATAACCAG                         GTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTC
genomic: CAGCTAGTTGCTGATAATTATGAAGGACTAAAGAAGTTGAACATAACCAGgtacacttca ... atatttatagGTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTC
EST: gi|29668175|gb|CB664450.1|CB664450
EST:     CAGCTAGTTGCTGATAATTATGAAGGACTAAAGAAGTTGAACATAACCAG                         GTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTC
genomic: CAGCTAGTTGCTGATAATTATGAAGGACTAAAGAAGTTGAACATAACCAGgtacacttca ... atatttatagGTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgagcaggaaatgaaatttaaacacgtatataccctctattatatatttatagGTGCATCAAGTTGACAGACGATGGACTTCAAGAAGTGCTTCAGAAATGTTCTTCTCTTGAAAGCTTGAACCTTTATGCCCTGTCAAG
                                     tctattatatatttat  TA-rich tract