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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattcagaattttgagatgcagtagtttatagcatcaaaattggccgcttcttgacttgtttctatgtgattgcagTATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAAATGAAGGCCTTGAATCTCCAG

Basic information

species Oryza sativa
transcript LOC_Os02g35590.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g35590.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G064255_T02 (Zea mays), 3'ss of exon 3
gtaagcattcagaattttgagatgcagtagtttatagcatcaaaattggccgcttcttga----cttgtttctatgtgat-tgcagTATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAAATGAAGGCCTTGAATCTCCAG
            | | | |||||   | ||||||| |  |||  ||||       |||||    |||||| || |||| | || |||||||||||||||||||||| ||||  |||||| |||||||||||||| ||| ||| || ||||||| ||||
---------gcaagtatcgagattttg-agtttattgtctcagtattgtttatcacttgaatcacttgttcctttgtgctatgtagTATTTGGAGGACAAGTACCCAGAGCCTCCTCTTCTACCTCAAGACCTTCAAAAGAAAGCTTTGAATCACCAG

upper sequence: LOC_Os02g35590.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G064255_T01 (Zea mays), 3'ss of exon 2
--------------gtaagcattcagaatt-ttgagatgcagtagtttatagcatcaaaattggccgcttcttga----cttgtttctatgtgat-tgcagTATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAAATGAAGGCCTTGAATCTCCAG
              |  | || |   || | | |||||   | ||||||| |  |||  ||||       |||||    |||||| || |||| | || |||||||||||||||||||||| ||||  |||||| |||||||||||||| ||| ||| || ||||||| ||||
ggtgactcttacgcgataacactggcaagtatcgagattttg-agtttattgtctcagtattgtttatcacttgaatcacttgttcctttgtgctatgtagTATTTGGAGGACAAGTACCCAGAGCCTCCTCTTCTACCTCAAGACCTTCAAAAGAAAGCTTTGAATCACCAG
















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|163920379|gb|EG714466.1|EG714466
EST:     CATTGGTCGATGGAGATGCTGTAATTGGTGATTCTTACGCGATAGCATTA                         TATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAA
genomic: CATTGGTCGATGGAGATGCTGTAATTGGTGATTCTTACGCGATAGCATTAgtaagcattc ... gtgattgcagTATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagtttatagcatcaaaattggccgcttcttgacttgtttctatgtgattgcagTATTTGGAGGACAAGTACCCTGAGCACCCTCTTTTACCTCAAGACCTTAAAATGAAGGCCTTGAATCTCCAG
                            tcttgac  putative branch site (score: 3)
            atcaaaatt  TA-rich tract